FIA NLS Models: Biomass Growth vs. Biomass – Additional Growth Estimators
JAH
2022-12-14
Background
This analysis document compliments FIA NLS Models: Biomass Growth vs. Biomass. All of the background information from that document applies to these analyses, which are extensions to them. The difference between that document and this analysis is the use of different growth estimators.
Here, we fit the models using: 1) calculated plot biomass growth (Mass-Balance method) using only trees >5 inches (12.5 cm) dbh (\(G_{MassBal > 5}\)), and 2) plot biomass growth (tree incremental growth method \(G_{TI}\) for trees >5 inches (12.5 cm) dbh (\(G_{TI-NoIngrow}\)).
Below the model fitting procedure is implemented by ecoprovince:
Analysis 1: \(G_{MassBal > 5}\)
211 - Northeastern Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6822 6268.0
## 2 6821 6235.4 1 32.546 35.603 2.541e-09 ***
## 3 6820 6221.2 1 14.190 15.556 8.089e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 26129.23
## 2 2 26095.70
## 3 3 26082.15##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.674498 0.213888 3.154 0.00162 **
## phi 0.030293 0.005334 5.679 1.41e-08 ***
## alpha 0.151999 0.037929 4.007 6.20e-05 ***
## A 3.628538 0.145390 24.957 < 2e-16 ***
## k 32.613102 1.763621 18.492 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9551 on 6820 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 7.405e-06
## (52 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6820 6221.2
## 2 6819 6220.4 1 0.8511 0.933 0.3341
## 3 6819 6219.5 0 0.0000
## 4 6818 6203.8 1 15.6642 17.215 3.379e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 26082.15
## 2 3a 26083.22
## 3 3b 26082.26
## 4 3c 26067.05##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.685520 0.214374 3.198 0.00139 **
## phi 0.029555 0.005308 5.568 2.67e-08 ***
## alpha 0.156989 0.037739 4.160 3.22e-05 ***
## A 3.224703 0.139363 23.139 < 2e-16 ***
## k 35.506210 1.992110 17.823 < 2e-16 ***
## p 0.149324 0.028956 5.157 2.58e-07 ***
## s 1.600234 0.150406 10.639 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9539 on 6818 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 1.559e-06
## (52 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 17 rows containing missing values (geom_point).## Warning: Removed 1038 row(s) containing missing values (geom_path).
plotting 2
212 - Laurentian Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 18911 19584
## 2 18906 19502 5 82.115 15.921 1.097e-15 ***
## 3 18905 19391 1 111.145 108.359 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 67445.37
## 2 2 67356.53
## 3 3 67250.45##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.84684 0.16123 5.252 1.52e-07 ***
## phi 0.02882 0.00323 8.922 < 2e-16 ***
## alpha 0.27444 0.02555 10.740 < 2e-16 ***
## A 3.45910 0.10186 33.960 < 2e-16 ***
## k 44.00640 1.49322 29.471 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.013 on 18905 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 8.694e-06
## (3805 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 18905 19391
## 2 18904 19390 1 1.6977 1.6552 0.1983
## 3 18904 19345 0 0.0000
## 4 18903 19316 1 29.2713 28.6456 8.792e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 67250.45
## 2 3a 67250.80
## 3 3b 67207.54
## 4 3c 67180.91##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.891108 0.162995 5.467 4.63e-08 ***
## phi 0.028604 0.003225 8.870 < 2e-16 ***
## alpha 0.282794 0.025317 11.170 < 2e-16 ***
## A 2.795505 0.087189 32.063 < 2e-16 ***
## k 31.258390 0.943478 33.131 < 2e-16 ***
## p 0.039140 0.006911 5.664 1.50e-08 ***
## s 1.530595 0.063957 23.932 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.011 on 18903 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 2.168e-06
## (3805 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 1926 rows containing missing values (geom_point).## Warning: Removed 1031 row(s) containing missing values (geom_path).
plotting 2
221 - Eastern Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 7266 9818.9
## 2 7265 9793.4 1 25.495 18.913 1.387e-05 ***
## 3 7264 9590.4 1 202.974 153.737 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 32046.10
## 2 2 32029.20
## 3 3 31878.96##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.988817 0.118035 -8.377 < 2e-16 ***
## phi 0.020771 0.005299 3.920 8.94e-05 ***
## alpha 0.519246 0.039968 12.991 < 2e-16 ***
## A 5.980923 0.201695 29.653 < 2e-16 ***
## k 32.683181 2.580097 12.667 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.149 on 7264 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 2.775e-06
## (64 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 7264 9590.4
## 2 7263 9574.4 1 15.9945 12.1332 0.0004982 ***
## 3 7263 9559.1 0 0.0000
## 4 7262 9558.3 1 0.8246 0.6265 0.4286597
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 31878.96
## 2 3a 31868.83
## 3 3b 31857.20
## 4 3c 31858.57##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s +
## B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.027007 0.115837 -8.866 < 2e-16 ***
## phi 0.021251 0.005293 4.015 6.01e-05 ***
## alpha 0.520095 0.039723 13.093 < 2e-16 ***
## A 9.403659 1.801768 5.219 1.85e-07 ***
## k 124.281123 88.581937 1.403 0.161
## s 0.536568 0.081920 6.550 6.15e-11 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.147 on 7263 degrees of freedom
##
## Number of iterations to convergence: 10
## Achieved convergence tolerance: 1.076e-06
## (64 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 32 rows containing missing values (geom_point).## Warning: Removed 1036 row(s) containing missing values (geom_path).
plotting 2
222 - Midwest Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 4839 5394.3
## 2 4838 5383.2 1 11.103 9.9789 0.001593 **
## 3 4837 5304.5 1 78.754 71.8138 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 19469.00
## 2 2 19461.02
## 3 3 19391.66##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.264563 0.215167 -1.230 0.21892
## phi 0.025578 0.008968 2.852 0.00436 **
## alpha 0.425194 0.047791 8.897 < 2e-16 ***
## A 5.159553 0.234255 22.025 < 2e-16 ***
## k 40.596780 2.741230 14.810 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.047 on 4837 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 6.398e-06
## (1003 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 4837 5304.5
## 2 4836 5278.0 1 26.4489 24.2339 8.815e-07 ***
## 3 4836 5266.0 0 0.0000
## 4 4835 5266.0 1 0.0125 0.0115 0.9148
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 19391.66
## 2 3a 19369.46
## 3 3b 19358.43
## 4 3c 19360.41##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s +
## B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.29333 0.21184 -1.385 0.16621
## phi 0.02365 0.00888 2.663 0.00777 **
## alpha 0.42418 0.04749 8.932 < 2e-16 ***
## A 9.03847 1.70448 5.303 1.19e-07 ***
## k 194.36309 112.01286 1.735 0.08277 .
## s 0.60311 0.05671 10.636 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.044 on 4836 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 1.19e-06
## (1003 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 489 rows containing missing values (geom_point).## Warning: Removed 1053 row(s) containing missing values (geom_path).
plotting 2
223 - Central Interior Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8742 10361
## 2 8741 10357 1 3.59 3.0301 0.08177 .
## 3 8740 10213 1 143.84 123.0907 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 35815.03
## 2 2 35814.00
## 3 3 35693.70##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.721669 0.124982 -5.774 8e-09 ***
## phi -0.011373 0.006206 -1.833 0.0669 .
## alpha 0.474022 0.040713 11.643 <2e-16 ***
## A 6.220919 0.229416 27.116 <2e-16 ***
## k 61.999434 4.180720 14.830 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.081 on 8740 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 6.274e-06
## (1265 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "a", "_MBg5", sep = "")), data = G_223, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_223, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_223, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## model AIC
## 1 3 35693.7
## 2 3a NA
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.721669 0.124982 -5.774 8e-09 ***
## phi -0.011373 0.006206 -1.833 0.0669 .
## alpha 0.474022 0.040713 11.643 <2e-16 ***
## A 6.220919 0.229416 27.116 <2e-16 ***
## k 61.999434 4.180720 14.830 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.081 on 8740 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 6.274e-06
## (1265 observations deleted due to missingness)summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
predict and plot
## Warning: Removed 620 rows containing missing values (geom_point).## Warning: Removed 1002 row(s) containing missing values (geom_path).
plotting 2
231 - Southeastern Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13233 28484
## 2 13232 28462 1 21.16 9.8378 0.001713 **
## 3 13231 27201 1 1261.55 613.6444 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 66709.26
## 2 2 66701.43
## 3 3 66103.36##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.894296 0.216964 8.731 <2e-16 ***
## phi 0.011411 0.004537 2.515 0.0119 *
## alpha 0.577267 0.021646 26.668 <2e-16 ***
## A 4.139687 0.136350 30.361 <2e-16 ***
## k 12.872682 0.733389 17.552 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.434 on 13231 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 2.119e-06
## (281 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13231 27201
## 2 13230 27143 1 57.897 28.220 1.100e-07 ***
## 3 13230 27185 0 0.000
## 4 13229 27117 1 68.434 33.386 7.727e-09 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 66103.36
## 2 3a 66077.16
## 3 3b 66097.71
## 4 3c 66066.35##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.916982 0.218104 8.789 <2e-16 ***
## phi 0.011568 0.004527 2.556 0.0106 *
## alpha 0.578073 0.021534 26.845 <2e-16 ***
## A 3.920044 0.137509 28.508 <2e-16 ***
## k 19.579507 1.297481 15.090 <2e-16 ***
## s 1.532558 0.143087 10.711 <2e-16 ***
## p 0.215128 0.025467 8.447 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.432 on 13229 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 8.348e-06
## (281 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 143 rows containing missing values (geom_point).## Warning: Removed 1017 row(s) containing missing values (geom_path).
plotting 2
232 - Outer Coastal Plain Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13303 32383
## 2 13302 32374 1 9.09 3.7347 0.05331 .
## 3 13301 31086 1 1287.82 551.0239 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 67119.92
## 2 2 67118.18
## 3 3 66580.06##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.217120 0.202369 6.014 1.85e-09 ***
## phi 0.004865 0.004835 1.006 0.314
## alpha 0.552376 0.021669 25.491 < 2e-16 ***
## A 4.614507 0.160978 28.665 < 2e-16 ***
## k 19.539797 0.996769 19.603 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.529 on 13301 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 1.622e-06
## (323 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13301 31086
## 2 13300 30996 1 89.920 38.583 5.403e-10 ***
## 3 13300 31051 0 0.000
## 4 13299 30980 1 71.267 30.594 3.241e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 66580.06
## 2 3a 66543.52
## 3 3b 66566.91
## 4 3c 66538.34##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.210556 0.201415 6.010 1.90e-09 ***
## phi 0.004612 0.004819 0.957 0.339
## alpha 0.552631 0.021585 25.602 < 2e-16 ***
## A 4.470390 0.177685 25.159 < 2e-16 ***
## k 26.555408 1.622920 16.363 < 2e-16 ***
## s 1.292768 0.110039 11.748 < 2e-16 ***
## p 0.151857 0.021081 7.203 6.19e-13 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.526 on 13299 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 4.492e-06
## (323 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 169 rows containing missing values (geom_point).## Warning: Removed 931 row(s) containing missing values (geom_path).
plotting 2
234 - Lower Mississippi Riverine Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1324 3585.5
## 2 1323 3583.4 1 2.091 0.7719 0.3798
## 3 1322 3425.7 1 157.702 60.8576 1.238e-14 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 6935.007
## 2 2 6936.233
## 3 3 6878.510##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.36910 1.48584 1.594 0.111
## phi -0.02860 0.02171 -1.318 0.188
## alpha 0.72235 0.08409 8.590 < 2e-16 ***
## A 3.57099 0.73913 4.831 1.51e-06 ***
## k 12.61195 2.97891 4.234 2.46e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.61 on 1322 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 4.505e-06
## (61 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_234, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1322 3425.7
## 2 1321 3417.1 1 8.6281 3.3355 0.06803 .
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 6878.510
## 2 3a 6877.163
## 3 3b 6874.539
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s +
## B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.33814 1.46855 1.592 0.11159
## phi -0.02864 0.02168 -1.321 0.18665
## alpha 0.71638 0.08409 8.519 < 2e-16 ***
## A 5.32758 2.10630 2.529 0.01154 *
## k 46.97352 76.64657 0.613 0.54008
## s 0.44452 0.16075 2.765 0.00577 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.607 on 1321 degrees of freedom
##
## Number of iterations to convergence: 10
## Achieved convergence tolerance: 3.471e-06
## (61 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.91212, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.5322, p-value = 5.837e-06
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 27 rows containing missing values (geom_point).## Warning: Removed 645 row(s) containing missing values (geom_path).
plotting 2
242 - Pacific Lowland Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 77 134.46
## 2 76 133.72 1 0.7389 0.4200 0.51890
## 3 75 124.41 1 9.3087 5.6118 0.02041 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 422.9552
## 2 2 424.5143
## 3 3 420.7417##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.75949 2.02917 -0.374 0.7092
## phi 0.06449 0.07007 0.920 0.3604
## alpha 0.91258 0.34680 2.631 0.0103 *
## A 9.93416 5.09806 1.949 0.0551 .
## k 31.51695 16.45984 1.915 0.0593 .
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.288 on 75 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 6.48e-06
## (3 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 75 124.41
## 2 74 121.35 1 3.05607 1.8636 0.1763
## 3 74 121.37 0 0.00000
## 4 73 121.21 1 0.15651 0.0943 0.7597
## model AIC
## 1 3 420.7417
## 2 3a 420.7519
## 3 3b 420.7622
## 4 3c 422.6590##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.75949 2.02917 -0.374 0.7092
## phi 0.06449 0.07007 0.920 0.3604
## alpha 0.91258 0.34680 2.631 0.0103 *
## A 9.93416 5.09806 1.949 0.0551 .
## k 31.51695 16.45984 1.915 0.0593 .
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.288 on 75 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 6.48e-06
## (3 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.8973, p-value = 9.381e-06
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = 1.2134, p-value = 0.225
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 2 rows containing missing values (geom_point).## Warning: Removed 725 row(s) containing missing values (geom_path).
plotting 2
251 - Prairie Parkland (Temperate)
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1785 2660.0
## 2 1784 2656.9 1 3.11481 2.0915 0.1483
## 3 1783 2655.9 1 0.94967 0.6375 0.4247
## model AIC
## 1 1 7632.934
## 2 2 7632.839
## 3 3 7634.199##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.12968 0.48733 0.266 0.790
## phi 0.01977 0.01380 1.433 0.152
## A 3.62465 0.35660 10.164 < 2e-16 ***
## k 24.44082 4.31621 5.663 1.73e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.22 on 1784 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 9.584e-06
## (507 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "a", "_MBg5", sep = "")), data = G_251, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_251, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_251, :
## number of iterations exceeded maximum of 50
## model AIC
## 1 2 7632.839
## 2 2a NA
## 3 2b NA
## 4 2c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.12968 0.48733 0.266 0.790
## phi 0.01977 0.01380 1.433 0.152
## A 3.62465 0.35660 10.164 < 2e-16 ***
## k 24.44082 4.31621 5.663 1.73e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.22 on 1784 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 9.584e-06
## (507 observations deleted due to missingness)summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.69784, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -7.7342, p-value = 1.041e-14
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 254 rows containing missing values (geom_point).## Warning: Removed 1176 row(s) containing missing values (geom_path).
plotting 2
255 - Prairie Parkland (Subtropical)
Model selection 1
## Error in nls(fg_1_MBg5, data = G_255, start = c(ge = ge.start, A = A.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_2_MBg5, data = G_255, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_3_MBg5, data = G_255, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## model AIC
## 1 1 NA
## 2 2 NA
## 3 3 NA## Warning in min(AIC1_255$AIC, na.rm = T): no non-missing arguments to min;
## returning Inf## Error in h(simpleError(msg, call)) :
## error in evaluating the argument 'object' in selecting a method for function 'summary': object 'nls_255.' not foundsummary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
261 - California Coastal Chaparral Forest and Shrub
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
262 - California Dry Steppe
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
263 - California Coastal Steppe - Mixed Forest and Redwood Forest
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
add p model: does not fit
add s model: does not fit
add s+p model: does not fit
note: model fit, but fit was funky due to data being sparse
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
313 - Colorado Plateau Semi-Desert
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 212 98.175
## 2 211 97.256 1 0.91939 1.9947 0.15933
## 3 210 94.284 1 2.97201 6.6196 0.01078 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 485.5008
## 2 2 485.4779
## 3 3 480.8052##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.42305 0.79743 -1.785 0.07578 .
## phi -0.07071 0.06200 -1.141 0.25533
## alpha 0.70397 0.24539 2.869 0.00454 **
## A 4.11814 1.28602 3.202 0.00158 **
## k 117.42612 36.69439 3.200 0.00159 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6701 on 210 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 3.915e-06
## (3 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 210 94.284
## 2 209 93.476 1 0.8080 1.8066 0.18037
## 3 209 94.049 0 0.0000
## 4 208 92.278 1 1.7708 3.9916 0.04703 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 480.8052
## 2 3a 480.9548
## 3 3b 482.2701
## 4 3c 480.1833##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.47770 0.76684 -1.927 0.055342 .
## phi -0.05736 0.05840 -0.982 0.327194
## alpha 0.71711 0.23947 2.995 0.003082 **
## A 3.10993 0.97399 3.193 0.001627 **
## k 93.87721 24.16809 3.884 0.000138 ***
## s 2.29208 1.06106 2.160 0.031902 *
## p 0.24090 0.10388 2.319 0.021367 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6661 on 208 degrees of freedom
##
## Number of iterations to convergence: 15
## Achieved convergence tolerance: 9.772e-06
## (3 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.97258, p-value = 0.0003382
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.61766, p-value = 0.5368
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 1103 row(s) containing missing values (geom_path).
plotting 2
315 - Southwest Plateau and Plains Dry Steppe and Shrub
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
321 - Chihuahuan Semi-Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
322 - American Semidesert and Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
331 - Great Plains/Palouse Dry Steppe
Model selection 1
## Error in nls(fg_1_MBg5, data = G_331, start = c(ge = ge.start, A = A.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_2_MBg5, data = G_331, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_3_MBg5, data = G_331, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## model AIC
## 1 1 NA
## 2 2 NA
## 3 3 NA## Warning in min(AIC1_331$AIC, na.rm = T): no non-missing arguments to min;
## returning Inf## Error in h(simpleError(msg, call)) :
## error in evaluating the argument 'object' in selecting a method for function 'summary': object 'nls_331.' not foundsummary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
332 - Great Plains Steppe
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 193 155.63
## 2 192 155.56 1 0.065766 0.0812 0.7760
## 3 191 155.37 1 0.190025 0.2336 0.6294
## model AIC
## 1 1 637.9079
## 2 2 639.8251
## 3 3 641.5855##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.3291 1.3677 0.241 0.81011
## A 4.3422 1.3161 3.299 0.00115 **
## k 74.7556 23.5156 3.179 0.00172 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.898 on 193 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 2.347e-06
## (36 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 193 155.63
## 2 192 150.74 1 4.8884 6.2265 0.01343 *
## 3 192 154.08 0 0.0000
## 4 191 148.95 1 5.1280 6.5756 0.01111 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 637.9079
## 2 1a 633.6526
## 3 1b 637.9485
## 4 1c 633.3142##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.12475 1.23334 0.101 0.91954
## A 3.91208 1.28052 3.055 0.00257 **
## k 81.11830 29.28454 2.770 0.00616 **
## p 0.20293 0.08487 2.391 0.01777 *
## s 1.89369 0.81015 2.337 0.02045 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8831 on 191 degrees of freedom
##
## Number of iterations to convergence: 17
## Achieved convergence tolerance: 9.985e-06
## (36 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.88968, p-value = 7.905e-11
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.7167, p-value = 0.08603
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 18 rows containing missing values (geom_point).## Warning: Removed 1120 row(s) containing missing values (geom_path).
plotting 2
341 - Intermountain Semi-desert & Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
342 - Intermountain Semi-Desert
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 112 71.868
## 2 111 71.835 1 0.0329 0.0508 0.822012
## 3 110 65.492 1 6.3433 10.6543 0.001464 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 293.4221
## 2 2 295.3694
## 3 3 286.7378##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.661840 6.389187 0.417 0.677771
## phi -0.008471 0.052926 -0.160 0.873131
## alpha 0.889450 0.236538 3.760 0.000274 ***
## A 2.988847 2.587754 1.155 0.250595
## k 91.219286 34.580837 2.638 0.009552 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7716 on 110 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 7.156e-06
## (9 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 110 65.492
## 2 109 65.475 1 0.017090 0.0285 0.8664
## 3 109 65.393 0 0.000000
## 4 108 65.369 1 0.024334 0.0402 0.8415
## model AIC
## 1 3 286.7378
## 2 3a 288.7078
## 3 3b 288.5645
## 4 3c 290.5217##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.661840 6.389187 0.417 0.677771
## phi -0.008471 0.052926 -0.160 0.873131
## alpha 0.889450 0.236538 3.760 0.000274 ***
## A 2.988847 2.587754 1.155 0.250595
## k 91.219286 34.580837 2.638 0.009552 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7716 on 110 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 7.156e-06
## (9 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.94359, p-value = 0.0001075
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.94042, p-value = 0.347
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 4 rows containing missing values (geom_point).## Warning: Removed 1241 row(s) containing missing values (geom_path).
plotting 2
411 - Everglades
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
M211 - Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6746 5130.8
## 2 6745 5123.3 1 7.5387 9.9251 0.001638 **
## 3 6744 5096.7 1 26.5898 35.1839 3.148e-09 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 24245.14
## 2 2 24237.22
## 3 3 24204.10##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.776053 0.292393 6.074 1.31e-09 ***
## phi 0.012473 0.004555 2.738 0.00619 **
## alpha 0.198383 0.032661 6.074 1.32e-09 ***
## A 2.934492 0.141794 20.695 < 2e-16 ***
## k 32.834100 1.760311 18.652 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8693 on 6744 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 1.433e-06
## (23 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6744 5096.7
## 2 6743 5092.4 1 4.2864 5.6758 0.01723 *
## 3 6743 5072.1 0 0.0000
## 4 6742 5064.9 1 7.1661 9.5390 0.00202 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 24204.10
## 2 3a 24200.42
## 3 3b 24173.40
## 4 3c 24165.86##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.806386 0.293626 6.152 8.09e-10 ***
## phi 0.013398 0.004547 2.946 0.003226 **
## alpha 0.207639 0.032343 6.420 1.46e-10 ***
## A 2.515559 0.122971 20.457 < 2e-16 ***
## k 31.259924 1.582294 19.756 < 2e-16 ***
## p 0.102758 0.028519 3.603 0.000317 ***
## s 1.756709 0.145437 12.079 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8667 on 6742 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 6.607e-06
## (23 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 14 rows containing missing values (geom_point).## Warning: Removed 1108 row(s) containing missing values (geom_path).
plotting 2
M221 - Eastern Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8257 15147
## 2 8256 15146 1 0.569 0.310 0.5777
## 3 8255 14972 1 174.514 96.223 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 39278.06
## 2 2 39279.75
## 3 3 39186.02##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.024860 0.169677 0.147 0.884
## phi -0.001611 0.006338 -0.254 0.799
## alpha 0.567513 0.055614 10.205 <2e-16 ***
## A 4.792958 0.189195 25.333 <2e-16 ***
## k 27.673568 2.788436 9.924 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.347 on 8255 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 8.14e-06
## (55 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M221, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8255 14972
## 2 8254 14959 1 12.834 7.0815 0.007803 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 39186.02
## 2 3a 39180.94
## 3 3b 39162.63
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s +
## B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -5.793e-02 1.647e-01 -0.352 0.72499
## phi 3.718e-04 6.334e-03 0.059 0.95320
## alpha 5.704e-01 5.512e-02 10.348 < 2e-16 ***
## A 1.507e+01 1.449e+01 1.040 0.29826
## k 2.660e+03 1.249e+04 0.213 0.83133
## s 3.446e-01 1.061e-01 3.247 0.00117 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.345 on 8254 degrees of freedom
##
## Number of iterations to convergence: 37
## Achieved convergence tolerance: 9.544e-06
## (55 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
predict and plot
## Warning: Removed 27 rows containing missing values (geom_point).## Warning: Removed 982 row(s) containing missing values (geom_path).
plotting 2
M223 - Ozark Broadleaf Forest Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 887 1241.7
## 2 886 1239.0 1 2.6605 1.9025 0.168150
## 3 885 1227.3 1 11.7138 8.4466 0.003748 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 3673.208
## 2 2 3673.298
## 3 3 3666.844##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.16033 1.66699 1.896 0.05831 .
## phi -0.03937 0.02342 -1.681 0.09303 .
## alpha 0.48299 0.15887 3.040 0.00243 **
## A 2.31843 0.51056 4.541 6.38e-06 ***
## k 34.64800 10.82215 3.202 0.00142 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.178 on 885 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 8.275e-06
## (6 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_M223, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M223, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 885 1227.3
## 2 884 1219.4 1 7.9234 5.744 0.01675 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 3666.844
## 2 3a 3663.080
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.26837 1.70317 1.919 0.05531 .
## phi -0.04226 0.02310 -1.830 0.06764 .
## alpha 0.48763 0.15523 3.141 0.00174 **
## A 6.95559 11.35961 0.612 0.54049
## k 766.64790 1829.53396 0.419 0.67529
## p 0.13739 0.20013 0.687 0.49257
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.174 on 884 degrees of freedom
##
## Number of iterations to convergence: 12
## Achieved convergence tolerance: 4.526e-06
## (6 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.92881, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.9933, p-value = 0.04623
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 6 rows containing missing values (geom_point).## Warning: Removed 1175 row(s) containing missing values (geom_path).
plotting 2
M231 - Ouachita Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 989 1325.2
## 2 988 1318.4 1 6.859 5.1401 0.023594 *
## 3 987 1304.2 1 14.172 10.7249 0.001094 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 4081.795
## 2 2 4078.647
## 3 3 4069.926##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.39354 1.51339 1.582 0.11407
## phi 0.04322 0.02493 1.734 0.08327 .
## alpha 0.38064 0.11207 3.396 0.00071 ***
## A 2.69216 0.58992 4.564 5.66e-06 ***
## k 34.26888 7.12171 4.812 1.73e-06 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.15 on 987 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 8.388e-06
## (14 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_M231, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M231, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 987 1304.2
## 2 986 1280.1 1 24.092 18.556 1.814e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 4069.926
## 2 3a 4053.430
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.02553 1.34865 1.502 0.133445
## phi 0.04358 0.02469 1.765 0.077859 .
## alpha 0.38068 0.11015 3.456 0.000572 ***
## A 6.67972 3.72361 1.794 0.073138 .
## k 382.54985 320.06757 1.195 0.232290
## p 0.12995 0.05498 2.364 0.018290 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.139 on 986 degrees of freedom
##
## Number of iterations to convergence: 12
## Achieved convergence tolerance: 9.165e-06
## (14 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.93047, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -3.9621, p-value = 7.428e-05
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 7 rows containing missing values (geom_point).## Warning: Removed 1218 row(s) containing missing values (geom_path).
plotting 2
M242 - Cascade Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 3147 8391.5
## 2 3146 8379.2 1 12.31 4.6215 0.03165 *
## 3 3145 8043.3 1 335.88 131.3332 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 16065.44
## 2 2 16062.81
## 3 3 15935.94##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.62506 0.25336 -6.414 1.63e-10 ***
## phi -0.02677 0.01763 -1.519 0.129
## alpha 0.90146 0.07141 12.623 < 2e-16 ***
## A 12.59456 1.10356 11.413 < 2e-16 ***
## k 140.66983 11.14462 12.622 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.599 on 3145 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 7.489e-06
## (74 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 3145 8043.3
## 2 3144 7980.9 1 62.352 24.5630 7.572e-07 ***
## 3 3144 7999.7 0 0.000
## 4 3143 7977.2 1 22.481 8.8574 0.002941 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 15935.94
## 2 3a 15913.43
## 3 3b 15920.82
## 4 3c 15913.95##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.64909 0.24829 -6.642 3.64e-11 ***
## phi -0.02102 0.01739 -1.208 0.227
## alpha 0.87403 0.07235 12.081 < 2e-16 ***
## A 14.31804 1.37821 10.389 < 2e-16 ***
## k 235.55628 35.16208 6.699 2.47e-11 ***
## p 0.07893 0.01326 5.952 2.95e-09 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.593 on 3144 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 2.076e-06
## (74 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.92246, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -5.2462, p-value = 1.553e-07
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 39 rows containing missing values (geom_point).## Warning: Removed 126 row(s) containing missing values (geom_path).
plotting 2
M261 - Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1682 3596.1
## 2 1681 3473.9 1 122.210 59.136 2.488e-14 ***
## 3 1680 3414.1 1 59.845 29.448 6.580e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 7923.648
## 2 2 7867.390
## 3 3 7840.110##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.36498 0.40262 -3.390 0.000714 ***
## phi 0.15870 0.01737 9.138 < 2e-16 ***
## alpha 0.60936 0.10510 5.798 8.01e-09 ***
## A 15.07115 1.83522 8.212 4.28e-16 ***
## k 193.82437 22.80452 8.499 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.426 on 1680 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 7.465e-06
## (292 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1680 3414.1
## 2 1679 3389.7 1 24.329 12.0508 0.0005308 ***
## 3 1679 3400.0 0 0.000
## 4 1678 3389.2 1 10.783 5.3384 0.0209811 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 7840.110
## 2 3a 7830.059
## 3 3b 7835.148
## 4 3c 7831.796##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.3845 0.3958 -3.498 0.000481 ***
## phi 0.1585 0.0173 9.164 < 2e-16 ***
## alpha 0.6013 0.1037 5.799 7.95e-09 ***
## A 17.7899 2.5541 6.965 4.69e-12 ***
## k 311.5811 63.2632 4.925 9.26e-07 ***
## p 0.0510 0.0121 4.213 2.65e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.421 on 1679 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 2.437e-06
## (292 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.89276, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.9088, p-value = 0.3635
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 155 rows containing missing values (geom_point).
plotting 2
M262 - Califormia Coastal Range = Coniferous Forest - Open woodland Shrub Meadow
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
M313 - Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 363 164.19
## 2 362 160.67 1 3.5196 7.9299 0.005129 **
## 3 361 153.60 1 7.0705 16.6175 5.628e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 863.6187
## 2 2 857.6877
## 3 3 843.2163##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.92530 0.38473 -5.004 8.78e-07 ***
## phi 0.05259 0.02300 2.287 0.0228 *
## alpha 0.54117 0.12017 4.503 9.04e-06 ***
## A 9.71675 1.87058 5.194 3.44e-07 ***
## k 154.77456 35.99823 4.300 2.21e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6523 on 361 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 4.859e-06
## (1 observation deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 361 153.60
## 2 360 153.03 1 0.56727 1.3345 0.2488
## 3 360 152.99 0 0.00000
## 4 359 152.98 1 0.00281 0.0066 0.9353
## model AIC
## 1 3 843.2163
## 2 3a 843.8621
## 3 3b 843.7494
## 4 3c 845.7427##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.92530 0.38473 -5.004 8.78e-07 ***
## phi 0.05259 0.02300 2.287 0.0228 *
## alpha 0.54117 0.12017 4.503 9.04e-06 ***
## A 9.71675 1.87058 5.194 3.44e-07 ***
## k 154.77456 35.99823 4.300 2.21e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6523 on 361 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 4.859e-06
## (1 observation deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.96738, p-value = 2.677e-07
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.086269, p-value = 0.9313
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 1183 row(s) containing missing values (geom_path).
plotting 2
M331 - Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1732 1437.1
## 2 1731 1421.1 1 15.983 19.468 1.086e-05 ***
## 3 1730 1341.5 1 79.624 102.682 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 4817.306
## 2 2 4799.901
## 3 3 4701.862##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.41422 0.65814 -0.629 0.529
## phi 0.08563 0.01402 6.108 1.24e-09 ***
## alpha 0.63878 0.05373 11.888 < 2e-16 ***
## A 2.82061 0.46094 6.119 1.16e-09 ***
## k 50.75980 7.41012 6.850 1.02e-11 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8806 on 1730 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 7.708e-06
## (21 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_M331, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M331, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1730 1341.5
## 2 1729 1330.6 1 10.953 14.233 0.000167 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 4701.862
## 2 3a 4689.639
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.25683 0.70343 -0.365 0.71508
## phi 0.08625 0.01399 6.167 8.65e-10 ***
## alpha 0.64873 0.05285 12.274 < 2e-16 ***
## A 3.82689 0.81201 4.713 2.64e-06 ***
## k 157.40858 53.18059 2.960 0.00312 **
## p 0.12119 0.01966 6.164 8.83e-10 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8772 on 1729 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 9.005e-06
## (21 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.84605, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.7997, p-value = 1.589e-06
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 7 rows containing missing values (geom_point).## Warning: Removed 1091 row(s) containing missing values (geom_path).
plotting 2
M332 - Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 2513 2563.7
## 2 2512 2557.8 1 5.935 5.8285 0.01584 *
## 3 2511 2377.9 1 179.816 189.8777 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 8302.884
## 2 2 8299.053
## 3 3 8117.647##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.97107 0.39890 -2.434 0.0150 *
## phi 0.03627 0.01641 2.210 0.0272 *
## alpha 0.77759 0.04949 15.711 < 2e-16 ***
## A 5.67586 0.70573 8.043 1.34e-15 ***
## k 88.39813 9.20937 9.599 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9731 on 2511 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 9.494e-06
## (96 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_M332, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M332, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 2511 2377.9
## 2 2510 2346.3 1 31.618 33.824 6.8e-09 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 8117.647
## 2 3a 8085.969
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.017070 0.386092 -2.634 0.00848 **
## phi 0.034878 0.016277 2.143 0.03223 *
## alpha 0.774202 0.049157 15.750 < 2e-16 ***
## A 8.090056 1.260163 6.420 1.63e-10 ***
## k 211.201214 41.853922 5.046 4.83e-07 ***
## p 0.064354 0.008343 7.713 1.75e-14 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9668 on 2510 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 9.149e-06
## (96 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.90314, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -6.0848, p-value = 1.166e-09
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 46 rows containing missing values (geom_point).## Warning: Removed 1001 row(s) containing missing values (geom_path).
plotting 2
M333 - Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1691 2038.0
## 2 1690 2036.0 1 1.971 1.636 0.2011
## 3 1689 1822.5 1 213.484 197.843 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 6585.713
## 2 2 6586.074
## 3 3 6400.433##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.354376 0.639816 -0.554 0.580
## phi 0.004082 0.018687 0.218 0.827
## alpha 0.859053 0.053716 15.993 < 2e-16 ***
## A 5.821094 0.913239 6.374 2.37e-10 ***
## k 61.118140 6.483580 9.427 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.039 on 1689 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 9.827e-06
## (59 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_MBg5", sep = "")), data = G_M333, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_MBg5", sep = "")), data = G_M333, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1689 1822.5
## 2 1688 1790.0 1 32.513 30.66 3.56e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 6400.433
## 2 3a 6371.940
## 3 3b NA
## 4 3c NA##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A +
## ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.385749 0.624568 -0.618 0.537
## phi 0.006924 0.018559 0.373 0.709
## alpha 0.849827 0.053006 16.033 < 2e-16 ***
## A 7.708509 1.306468 5.900 4.38e-09 ***
## k 146.625086 25.985212 5.643 1.96e-08 ***
## p 0.083952 0.011123 7.548 7.20e-14 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.03 on 1688 degrees of freedom
##
## Number of iterations to convergence: 11
## Achieved convergence tolerance: 5.607e-06
## (59 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.92394, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -5.5297, p-value = 3.208e-08
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 29 rows containing missing values (geom_point).## Warning: Removed 925 row(s) containing missing values (geom_path).
plotting 2
M334 - Black Hills Coniferous Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 355 329.22
## 2 354 329.12 1 0.0988 0.1063 0.7446
## 3 353 306.69 1 22.4347 25.8224 6.081e-07 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 1055.669
## 2 2 1057.562
## 3 3 1034.287##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.20360 1.67740 -0.121 0.90346
## phi -0.01703 0.03551 -0.480 0.63178
## alpha 0.76864 0.13256 5.798 1.49e-08 ***
## A 2.63805 0.94448 2.793 0.00550 **
## k 37.35520 11.31477 3.301 0.00106 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9321 on 353 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 3.275e-06
## (101 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 353 306.69
## 2 352 306.69 1 0.00219 0.0025 0.9600
## 3 352 306.61 0 0.00000
## 4 351 306.14 1 0.46172 0.5294 0.4674
## model AIC
## 1 3 1034.287
## 2 3a 1036.284
## 3 3b 1036.188
## 4 3c 1037.649##
## Formula: G_MassBal_g5_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) *
## (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k +
## B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.20360 1.67740 -0.121 0.90346
## phi -0.01703 0.03551 -0.480 0.63178
## alpha 0.76864 0.13256 5.798 1.49e-08 ***
## A 2.63805 0.94448 2.793 0.00550 **
## k 37.35520 11.31477 3.301 0.00106 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9321 on 353 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 3.275e-06
## (101 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.82213, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.998, p-value = 0.04572
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 48 rows containing missing values (geom_point).## Warning: Removed 1264 row(s) containing missing values (geom_path).
plotting 2
M341 - Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
Fitted parameters
Best / selected models by ecoprovince
| Code | Ecoregion | Sel.Mod |
|---|---|---|
| 211 | Northeastern Mixed Forest | 3c |
| 212 | Laurentian Mixed Forest | 3c |
| 221 | Eastern Broadleaf Forest | 3b |
| 222 | Midwest Broadleaf Forest | 3b |
| 223 | Central Interior Broadleaf Forest | 3 |
| 231 | Southeastern Mixed Forest | 3c |
| 232 | Outer Coastal Plain Mixed Forest | 3c |
| 234 | Lower Mississippi Riverine Forest | 3b |
| 242 | Pacific Lowland Mixed Forest | 3 |
| 251 | Prairie Parkland (Temperate) | 2 |
| 255 | Prairie Parkland (Subtropical) | NA |
| 261 | California Coastal Chaparral Forest and Shrub | NA |
| 262 | California Dry Steppe | NA |
| 263 | California Coastal Steppe - Mixed Forest and Redwood Forest | NA |
| 313 | Colorado Plateau Semi-Desert | 3c |
| 315 | Southwest Plateau and Plains Dry Steppe and Shrub | NA |
| 321 | Chihuahuan Semi-Desert | NA |
| 322 | American Semidesert and Desert | NA |
| 331 | Great Plains/Palouse Dry Steppe | NA |
| 332 | Great Plains Steppe | 1c |
| 341 | Intermountain Semi-Desert and Desert | NA |
| 342 | Intermountain Semi-Desert | 3 |
| 411 | Everglades | NA |
| M211 | Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow | 3c |
| M221 | Central Appalachian Broadleaf Forest - Coniferous Forest - Meadow | 3b |
| M223 | Ozark Broadleaf Forest Meadow | 3a |
| M231 | Ouachita Mixed Forest | 3a |
| M242 | Cascade Mixed Forest | 3a |
| M261 | Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow | 3a |
| M262 | California Coastal Range Coniferous Forest - Open Woodland - Shrub - Meadow | NA |
| M313 | Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow | 3 |
| M331 | Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow | 3a |
| M332 | Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | 3a |
| M333 | Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | 3a |
| M334 | Black Hills Coniferous Forest | 3 |
| M341 | Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow | NA |
table by ecoprovince
| Code | Ecoregion | region | n.obs | n.plots | ge | ge.variance | ge.2.5 | ge.97.5 | phi | phi.variance | phi.2.5 | phi.97.5 | alpha | alpha.variance | alpha.2.5 | alpha.97.5 | A | A.2.5 | A.97.5 | k | k.2.5 | k.97.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 211 | Northeastern Mixed Forest | east | 6877 | 2876 | 0.6855202 | 0.0459563 | 0.2652800 | 1.1057603 | 0.0295554 | 0.0000282 | 0.0191503 | 0.0399605 | 0.1569893 | 0.0014243 | 0.0830081 | 0.2309704 | 3.224703 | 2.9515083 | 3.497898 | 35.50621 | 31.601054 | 39.41137 |
| 212 | Laurentian Mixed Forest | east | 22715 | 9499 | 0.8911082 | 0.0265673 | 0.5716238 | 1.2105926 | 0.0286043 | 0.0000104 | 0.0222833 | 0.0349253 | 0.2827939 | 0.0006410 | 0.2331701 | 0.3324176 | 2.795505 | 2.6246072 | 2.966403 | 31.25839 | 29.409089 | 33.10769 |
| 221 | Eastern Broadleaf Forest | east | 7333 | 3571 | -1.0270072 | 0.0134183 | -1.2540822 | -0.7999321 | 0.0212515 | 0.0000280 | 0.0108748 | 0.0316281 | 0.5200947 | 0.0015779 | 0.4422254 | 0.5979639 | 9.403659 | 5.8716698 | 12.935648 | 124.28112 | -49.365221 | 297.92747 |
| 222 | Midwest Broadleaf Forest | east | 5845 | 2589 | -0.2933344 | 0.0448758 | -0.7086354 | 0.1219667 | 0.0236480 | 0.0000789 | 0.0062383 | 0.0410578 | 0.4241844 | 0.0022551 | 0.3310860 | 0.5172828 | 9.038465 | 5.6969092 | 12.380021 | 194.36309 | -25.233038 | 413.95922 |
| 223 | Central Interior Broadleaf Forest | east | 10010 | 3864 | -0.7216688 | 0.0156206 | -0.9666633 | -0.4766742 | -0.0113731 | 0.0000385 | -0.0235379 | 0.0007917 | 0.4740221 | 0.0016575 | 0.3942158 | 0.5538285 | 6.220919 | 5.7712096 | 6.670628 | 61.99943 | 53.804238 | 70.19463 |
| 231 | Southeastern Mixed Forest | east | 13517 | 6193 | 1.9169822 | 0.0475696 | 1.4894662 | 2.3444983 | 0.0115680 | 0.0000205 | 0.0026952 | 0.0204408 | 0.5780726 | 0.0004637 | 0.5358633 | 0.6202818 | 3.920043 | 3.6505071 | 4.189580 | 19.57951 | 17.036259 | 22.12275 |
| 232 | Outer Coastal Plain Mixed Forest | east | 13629 | 6626 | 1.2105558 | 0.0405679 | 0.8157541 | 1.6053574 | 0.0046124 | 0.0000232 | -0.0048336 | 0.0140584 | 0.5526314 | 0.0004659 | 0.5103213 | 0.5949414 | 4.470390 | 4.1221024 | 4.818677 | 26.55541 | 23.374254 | 29.73656 |
| 234 | Lower Mississippi Riverine Forest | east | 1388 | 778 | 2.3381420 | 2.1566506 | -0.5428103 | 5.2190944 | -0.0286401 | 0.0004699 | -0.0711646 | 0.0138843 | 0.7163784 | 0.0070719 | 0.5514047 | 0.8813521 | 5.327577 | 1.1955121 | 9.459643 | 46.97352 | -103.388769 | 197.33581 |
| 242 | Pacific Lowland Mixed Forest | pacific | 83 | 83 | -0.7594860 | 4.1175112 | -4.8017902 | 3.2828183 | 0.0644850 | 0.0049100 | -0.0751037 | 0.2040737 | 0.9125757 | 0.1202673 | 0.2217233 | 1.6034282 | 9.934156 | -0.2217079 | 20.090019 | 31.51695 | -1.272733 | 64.30664 |
| 251 | Prairie Parkland (Temperate) | east | 2295 | 906 | 0.1296752 | 0.2374862 | -0.8261137 | 1.0854642 | 0.0197742 | 0.0001904 | -0.0072887 | 0.0468371 | NA | NA | NA | NA | 3.624652 | 2.9252504 | 4.324054 | 24.44082 | 15.975461 | 32.90617 |
| 255 | Prairie Parkland (Subtropical) | east | 717 | 319 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 261 | California Coastal Chaparral Forest and Shrub | pacific | 25 | 25 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 262 | California Dry Steppe | pacific | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 263 | California Coastal Steppe - Mixed Forest and Redwood Forest | pacific | 163 | 161 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 313 | Colorado Plateau Semi-Desert | interior west | 218 | 218 | -1.4777002 | 0.5880419 | -2.9894731 | 0.0340726 | -0.0573586 | 0.0034111 | -0.1724987 | 0.0577816 | 0.7171105 | 0.0573457 | 0.2450119 | 1.1892092 | 3.109929 | 1.1897688 | 5.030090 | 93.87721 | 46.231403 | 141.52301 |
| 315 | Southwest Plateau and Plains Dry Steppe and Shrub | interior west | 4 | 4 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 321 | Chihuahuan Semi-Desert | interior west | 9 | 9 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 322 | American Semidesert and Desert | interior west | 3 | 3 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 331 | Great Plains/Palouse Dry Steppe | interior west | 331 | 255 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 332 | Great Plains Steppe | interior west | 232 | 128 | 0.1247516 | 1.5211347 | -2.3079704 | 2.5574736 | NA | NA | NA | NA | NA | NA | NA | NA | 3.912076 | 1.3862998 | 6.437853 | 81.11830 | 23.355661 | 138.88093 |
| 341 | Intermountain Semi-Desert and Desert | interior west | 66 | 64 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 342 | Intermountain Semi-Desert | interior west | 124 | 123 | 2.6618399 | 40.8217080 | -10.0000287 | 15.3237085 | -0.0084711 | 0.0028012 | -0.1133582 | 0.0964160 | 0.8894499 | 0.0559504 | 0.4206862 | 1.3582136 | 2.988847 | -2.1394744 | 8.117168 | 91.21929 | 22.688183 | 159.75039 |
| 411 | Everglades | east | 96 | 63 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| M211 | Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow | east | 6772 | 3006 | 1.8063858 | 0.0862164 | 1.2307855 | 2.3819861 | 0.0133984 | 0.0000207 | 0.0044841 | 0.0223127 | 0.2076393 | 0.0010461 | 0.1442368 | 0.2710418 | 2.515559 | 2.2744975 | 2.756621 | 31.25992 | 28.158128 | 34.36172 |
| M221 | Central Appalachian Broadleaf Forest - Coniferous Forest - Meadow | east | 8315 | 3810 | -0.0579321 | 0.0271163 | -0.3807269 | 0.2648628 | 0.0003718 | 0.0000401 | -0.0120447 | 0.0127883 | 0.5703604 | 0.0030380 | 0.4623153 | 0.6784055 | 15.069965 | -13.3283468 | 43.468277 | 2660.06949 | -21820.836460 | 27140.97544 |
| M223 | Ozark Broadleaf Forest Meadow | east | 896 | 349 | 3.2683749 | 2.9007893 | -0.0743544 | 6.6111042 | -0.0422559 | 0.0005334 | -0.0875839 | 0.0030721 | 0.4876283 | 0.0240952 | 0.1829733 | 0.7922832 | 6.955594 | -15.3393517 | 29.250540 | 766.64790 | -2824.089055 | 4357.38485 |
| M231 | Ouachita Mixed Forest | east | 1006 | 495 | 2.0255255 | 1.8188546 | -0.6210270 | 4.6720781 | 0.0435758 | 0.0006095 | -0.0048706 | 0.0920222 | 0.3806779 | 0.0121335 | 0.1645183 | 0.5968375 | 6.679720 | -0.6273893 | 13.986830 | 382.54985 | -245.542048 | 1010.64175 |
| M242 | Cascade Mixed Forest | pacific | 3224 | 3207 | -1.6490940 | 0.0616499 | -2.1359287 | -1.1622594 | -0.0210194 | 0.0003026 | -0.0551259 | 0.0130870 | 0.8740265 | 0.0052339 | 0.7321773 | 1.0158758 | 14.318035 | 11.6157475 | 17.020323 | 235.55628 | 166.613332 | 304.49923 |
| M261 | Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow | pacific | 1977 | 1807 | -1.3845420 | 0.1566866 | -2.1609272 | -0.6081568 | 0.1585085 | 0.0002992 | 0.1245845 | 0.1924325 | 0.6012556 | 0.0107500 | 0.3978953 | 0.8046159 | 17.789925 | 12.7803942 | 22.799456 | 311.58107 | 187.497956 | 435.66419 |
| M262 | California Coastal Range Coniferous Forest - Open Woodland - Shrub - Meadow | interior west | 30 | 26 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| M313 | Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow | interior west | 367 | 367 | -1.9252963 | 0.1480148 | -2.6818838 | -1.1687088 | 0.0525901 | 0.0005289 | 0.0073617 | 0.0978184 | 0.5411726 | 0.0144408 | 0.3048515 | 0.7774937 | 9.716752 | 6.0381397 | 13.395364 | 154.77456 | 83.981998 | 225.56713 |
| M331 | Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow | interior west | 1756 | 1756 | -0.2568292 | 0.4948178 | -1.6364981 | 1.1228397 | 0.0862507 | 0.0001956 | 0.0588190 | 0.1136824 | 0.6487265 | 0.0027936 | 0.5450605 | 0.7523925 | 3.826887 | 2.2342522 | 5.419522 | 157.40858 | 53.103535 | 261.71363 |
| M332 | Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | interior west | 2612 | 2602 | -1.0170704 | 0.1490670 | -1.7741617 | -0.2599790 | 0.0348775 | 0.0002649 | 0.0029595 | 0.0667955 | 0.7742019 | 0.0024164 | 0.6778102 | 0.8705936 | 8.090056 | 5.6189900 | 10.561122 | 211.20121 | 129.129459 | 293.27297 |
| M333 | Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | interior west | 1753 | 1742 | -0.3857489 | 0.3900848 | -1.6107574 | 0.8392596 | 0.0069239 | 0.0003444 | -0.0294779 | 0.0433256 | 0.8498266 | 0.0028096 | 0.7458627 | 0.9537905 | 7.708509 | 5.1460408 | 10.270977 | 146.62509 | 95.658460 | 197.59171 |
| M334 | Black Hills Coniferous Forest | interior west | 459 | 181 | -0.2035974 | 2.8136685 | -3.5025504 | 3.0953556 | -0.0170308 | 0.0012608 | -0.0868632 | 0.0528016 | 0.7686404 | 0.0175730 | 0.5079271 | 1.0293536 | 2.638048 | 0.7805277 | 4.495567 | 37.35520 | 15.102366 | 59.60803 |
| M341 | Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow | interior west | 220 | 220 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
plot ge
map
## OGR data source with driver: ESRI Shapefile
## Source: "C:\Users\hogan.jaaron\Dropbox\FIA_R\Mapping\S_USA.EcoMapProvinces\S_USA.EcoMapProvinces.shp", layer: "S_USA.EcoMapProvinces"
## with 37 features
## It has 17 fields
## Integer64 fields read as strings: PROVINCE_ PROVINCE_I## Warning: package 'ggnewscale' was built under R version 4.2.1## Warning in grid.Call(C_stringMetric, as.graphicsAnnot(x$label)): font family not
## found in Windows font database
## Warning in grid.Call(C_stringMetric, as.graphicsAnnot(x$label)): font family not
## found in Windows font database## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
plot phi (effect of DeltaPDSI)
plot alpha (biomass growth compensation effect)
plot A (asymptote of forest biomass growth in Mg/ha/yr)
## Warning: Removed 12 rows containing missing values (geom_point).
plot k (stand biomass at half biomss G in Mg/ha)
## Warning: Removed 13 rows containing missing values (geom_point).
Caclulations - weighted averages
ge (stand biomass growth enhancement factor in % 2000-2021)
## region weighted.ge weighted.ge.std_Error 95 % CI, upper 95 % CI, lower
## 1 entire US 0.34627179 0.06956085 0.48261106 0.2099325
## 2 pacific -0.13558134 0.01870581 -0.09891795 -0.1722447
## 3 east 0.55939449 0.05610031 0.66935110 0.4494379
## 4 interior west -0.07754135 0.03662731 -0.00575182 -0.1493309phi (effect of DeltaPDSI)
## region weighted.phi weighted.phi.std_Error 95 % CI, upper
## 1 entire US 0.018602357 3.494004e-08 0.018602425
## 2 pacific 0.003873419 1.108463e-03 0.006046007
## 3 east 0.010293188 1.321777e-03 0.012883872
## 4 interior west 0.004435749 1.058486e-03 0.006510382
## 95 % CI, lower
## 1 0.018602288
## 2 0.001700831
## 3 0.007702505
## 4 0.002361117alpha (biomass growth compensation effect)
## region weighted.alpha weighted.alpha.std_Error 95 % CI, upper
## 1 entire US 0.48480805 1.790528e-07 0.48480840
## 2 pacific 0.06845431 5.172192e-03 0.07859180
## 3 east 0.32593507 8.307784e-03 0.34221832
## 4 interior west 0.09041867 3.435108e-03 0.09715149
## 95 % CI, lower
## 1 0.48480770
## 2 0.05831681
## 3 0.30965181
## 4 0.08368586A (asymptote of forest biomass growth in Mg/ha/yr)
## region weighted.A
## 1 entire US 6.466352
## 2 pacific 14.932589
## 3 east 5.537695
## 4 interior west 6.077999K (stand biomass at half biomass G in Mg/ha)
## region weighted.k
## 1 entire US 261.2923
## 2 pacific 250.0609
## 3 east 280.9557
## 4 interior west 154.1969Analaysis 2: \(G_{TI-NoIngrow}\)
211 - Northeastern Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6822 4506.3
## 2 6821 4494.3 1 12.03 18.259 1.954e-05 ***
## 3 6820 4166.4 1 327.82 536.606 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 21450.25
## 2 2 21434.01
## 3 3 20919.09##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.657e-01 1.786e-01 2.048 0.0406 *
## phi 2.097e-02 4.896e-03 4.282 1.88e-05 ***
## alpha 7.955e-01 3.171e-02 25.090 < 2e-16 ***
## A 4.951e+00 2.039e-01 24.279 < 2e-16 ***
## k 1.149e+02 5.450e+00 21.079 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7816 on 6820 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 6.819e-06
## (52 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6820 4166.4
## 2 6819 4166.4 1 0.0202 0.0331 0.8556890
## 3 6819 4163.6 0 0.0000
## 4 6818 4156.9 1 6.7849 11.1285 0.0008547 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 20919.09
## 2 3a 20921.06
## 3 3b 20916.52
## 4 3c 20907.39##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.381383 0.179370 2.126 0.033519 *
## phi 0.020098 0.004874 4.124 3.77e-05 ***
## alpha 0.798296 0.031589 25.271 < 2e-16 ***
## A 3.890913 0.208976 18.619 < 2e-16 ***
## k 78.768988 5.103269 15.435 < 2e-16 ***
## p 0.051308 0.013823 3.712 0.000207 ***
## s 1.402154 0.096921 14.467 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7808 on 6818 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 2.09e-06
## (52 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 22 rows containing missing values (geom_point).## Warning: Removed 1038 row(s) containing missing values (geom_path).
plotting 2
212 - Laurentian Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 18911 11656
## 2 18906 11560 5 95.88 31.36 < 2.2e-16 ***
## 3 18905 10222 1 1337.88 2474.27 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 47432.75
## 2 2 47270.53
## 3 3 44946.68##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 5.608e-01 1.272e-01 4.41 1.04e-05 ***
## phi 3.743e-02 2.784e-03 13.44 < 2e-16 ***
## alpha 1.068e+00 1.930e-02 55.34 < 2e-16 ***
## A 6.099e+00 2.100e-01 29.05 < 2e-16 ***
## k 2.132e+02 8.068e+00 26.42 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7353 on 18905 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 2.41e-06
## (3805 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 18905 10222
## 2 18904 10193 1 29.3436 54.421 1.685e-13 ***
## 3 18904 10096 0 0.0000
## 4 18903 10089 1 6.8545 12.843 0.0003396 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 44946.68
## 2 3a 44894.32
## 3 3b 44712.94
## 4 3c 44702.09##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.622651 0.128755 4.836 1.34e-06 ***
## phi 0.036859 0.002759 13.357 < 2e-16 ***
## alpha 1.068645 0.018946 56.404 < 2e-16 ***
## A 3.304583 0.108381 30.490 < 2e-16 ***
## k 74.721418 2.756747 27.105 < 2e-16 ***
## p 0.007008 0.001980 3.540 0.000401 ***
## s 1.487757 0.037057 40.148 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7306 on 18903 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 4.34e-06
## (3805 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 1880 rows containing missing values (geom_point).## Warning: Removed 1031 row(s) containing missing values (geom_path).
plotting 2
221 - Eastern Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 7266 7882.2
## 2 7265 7861.6 1 20.6 19.041 1.297e-05 ***
## 3 7264 7409.1 1 452.5 443.638 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 28950.11
## 2 2 28933.09
## 3 3 28504.17##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.042425 0.110097 -9.468 < 2e-16 ***
## phi 0.019581 0.005046 3.880 0.000105 ***
## alpha 0.820298 0.036323 22.583 < 2e-16 ***
## A 7.072648 0.270924 26.106 < 2e-16 ***
## k 90.061611 5.708525 15.777 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.01 on 7264 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 8.363e-06
## (64 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 7264 7409.1
## 2 7263 7404.8 1 4.3213 4.2385 0.03955 *
## 3 7263 7396.5 0 0.0000
## 4 7262 7394.7 1 1.7401 1.7089 0.19117
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 28504.17
## 2 3a 28501.93
## 3 3b 28493.73
## 4 3c 28494.02##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.06362 0.10896 -9.762 < 2e-16 ***
## phi 0.01944 0.00504 3.857 0.000116 ***
## alpha 0.82014 0.03622 22.645 < 2e-16 ***
## A 9.90386 1.51624 6.532 6.93e-11 ***
## k 200.80804 77.54484 2.590 0.009629 **
## s 0.75435 0.06776 11.132 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.009 on 7263 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 7.112e-06
## (64 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 29 rows containing missing values (geom_point).## Warning: Removed 1036 row(s) containing missing values (geom_path).
plotting 2
222 - Midwest Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 4839 3647.5
## 2 4838 3644.1 1 3.44 4.5652 0.03268 *
## 3 4837 3291.3 1 352.76 518.4278 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 15860.31
## 2 2 15857.74
## 3 3 15366.75##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 8.246e-03 2.146e-01 0.038 0.9693
## phi 1.574e-02 7.750e-03 2.030 0.0424 *
## alpha 9.714e-01 3.840e-02 25.295 <2e-16 ***
## A 6.925e+00 3.611e-01 19.177 <2e-16 ***
## k 1.403e+02 8.614e+00 16.285 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8249 on 4837 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 6.078e-07
## (1003 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_222, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562## Warning in anovalist.nls(object, ...): models with response
## '"G_MassBal_g5_MgHaYr"' removed because response differs from model 1## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 4837 3291.3
## 2 4836 3287.5 1 3.8198 5.619 0.01781 *
## 3 4836 3288.1 0 0.0000
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 15366.75
## 2 3a 15363.13
## 3 3b 15363.93
## 4 3c 19360.41##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.924e-03 2.140e-01 0.009 0.9928
## phi 1.541e-02 7.740e-03 1.992 0.0465 *
## alpha 9.708e-01 3.835e-02 25.313 <2e-16 ***
## A 7.304e+00 4.317e-01 16.919 <2e-16 ***
## k 1.591e+02 1.336e+01 11.909 <2e-16 ***
## p 1.160e-02 4.592e-03 2.525 0.0116 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8245 on 4836 degrees of freedom
##
## Number of iterations to convergence: 3
## Achieved convergence tolerance: 9.256e-06
## (1003 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 530 rows containing missing values (geom_point).## Warning: Removed 1053 row(s) containing missing values (geom_path).
plotting 2
223 - Central Interior Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8742 7835.7
## 2 8741 7834.5 1 1.27 1.4168 0.234
## 3 8740 7410.9 1 423.52 499.4683 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 31017.79
## 2 2 31018.38
## 3 3 30534.38##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.931980 0.107101 -8.702 <2e-16 ***
## phi -0.007785 0.005843 -1.332 0.183
## alpha 0.848540 0.035035 24.220 <2e-16 ***
## A 11.729351 0.676416 17.340 <2e-16 ***
## k 260.949648 19.492235 13.387 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9208 on 8740 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 2.652e-06
## (1265 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_TI", sep = "")), data = G_223, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_223, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8740 7410.9
## 2 8739 7365.7 1 45.22 53.651 2.607e-13 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 30534.38
## 2 3a 30482.86
## 3 3b NA
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.951410 0.105612 -9.009 < 2e-16 ***
## phi -0.004955 0.005838 -0.849 0.396
## alpha 0.849890 0.034520 24.620 < 2e-16 ***
## A 22.939833 3.801953 6.034 1.67e-09 ***
## k 732.507285 153.106819 4.784 1.74e-06 ***
## p 0.021022 0.002603 8.075 7.64e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9181 on 8739 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 3.744e-06
## (1265 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
predict and plot
## Warning: Removed 628 rows containing missing values (geom_point).## Warning: Removed 1002 row(s) containing missing values (geom_path).
plotting 2
231 - Southeastern Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13233 26261
## 2 13232 26221 1 39.73 20.047 7.621e-06 ***
## 3 13231 23383 1 2838.41 1606.090 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 60936.50
## 2 2 60918.47
## 3 3 59404.05##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.365540 0.192401 7.097 1.34e-12 ***
## phi 0.016778 0.004675 3.589 0.000333 ***
## alpha 0.937866 0.020973 44.718 < 2e-16 ***
## A 5.253882 0.187488 28.023 < 2e-16 ***
## k 62.702798 2.803834 22.363 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.329 on 13231 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 5.3e-06
## (281 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13231 23383
## 2 13230 23373 1 9.4160 5.3297 0.02098 *
## 3 13230 23348 0 0.0000
## 4 13229 23344 1 3.5243 1.9972 0.15761
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 59404.05
## 2 3a 59400.72
## 3 3b 59386.25
## 4 3c 59386.25##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.403917 0.194445 7.220 5.48e-13 ***
## phi 0.016848 0.004673 3.605 0.000313 ***
## alpha 0.939219 0.020886 44.968 < 2e-16 ***
## A 4.570986 0.187598 24.366 < 2e-16 ***
## k 46.752716 2.684293 17.417 < 2e-16 ***
## s 1.210934 0.047882 25.290 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.328 on 13230 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 7.779e-06
## (281 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 139 rows containing missing values (geom_point).## Warning: Removed 1017 row(s) containing missing values (geom_path).
plotting 2
232 - Outer Coastal Plain Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13303 28896
## 2 13302 28882 1 14.3 6.5638 0.01042 *
## 3 13301 25616 1 3265.7 1695.7274 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 60049.81
## 2 2 60045.24
## 3 3 58450.62##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.016489 0.195833 5.191 2.13e-07 ***
## phi 0.006927 0.004944 1.401 0.161
## alpha 0.962197 0.020564 46.790 < 2e-16 ***
## A 5.369908 0.204589 26.247 < 2e-16 ***
## k 68.553843 3.000312 22.849 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.388 on 13301 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 9.201e-07
## (323 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 13301 25616
## 2 13300 25615 1 0.5427 0.2818 0.5955465
## 3 13300 25586 0 0.0000
## 4 13299 25562 1 24.2949 12.6398 0.0003789 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 58450.62
## 2 3a 58452.34
## 3 3b 58437.20
## 4 3c 58426.56##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.039161 0.196858 5.279 1.32e-07 ***
## phi 0.006382 0.004929 1.295 0.195421
## alpha 0.964743 0.020399 47.295 < 2e-16 ***
## A 4.483501 0.191651 23.394 < 2e-16 ***
## k 49.948019 2.526469 19.770 < 2e-16 ***
## s 1.363086 0.070290 19.392 < 2e-16 ***
## p 0.028517 0.007624 3.740 0.000185 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.386 on 13299 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 1.867e-06
## (323 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 178 rows containing missing values (geom_point).## Warning: Removed 931 row(s) containing missing values (geom_path).
plotting 2
234 - Lower Mississippi Riverine Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1324 3905.3
## 2 1323 3904.4 1 0.883 0.2993 0.5844
## 3 1322 3648.6 1 255.827 92.6948 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 6664.563
## 2 2 6666.262
## 3 3 6578.334##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.20612 2.10603 1.522 0.128159
## phi -0.02311 0.02463 -0.938 0.348162
## alpha 0.98799 0.09077 10.884 < 2e-16 ***
## A 3.64817 0.97321 3.749 0.000185 ***
## k 57.32926 10.48334 5.469 5.42e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.661 on 1322 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 9.039e-06
## (61 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1322 3648.6
## 2 1321 3648.2 1 0.33126 0.1199 0.7291
## 3 1321 3648.1 0 0.00000
## 4 1320 3648.0 1 0.01897 0.0069 0.9340
## model AIC
## 1 3 6578.334
## 2 3a 6580.214
## 3 3b 6580.152
## 4 3c 6582.145##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.20612 2.10603 1.522 0.128159
## phi -0.02311 0.02463 -0.938 0.348162
## alpha 0.98799 0.09077 10.884 < 2e-16 ***
## A 3.64817 0.97321 3.749 0.000185 ***
## k 57.32926 10.48334 5.469 5.42e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.661 on 1322 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 9.039e-06
## (61 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.84416, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -3.8168, p-value = 0.0001352
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 31 rows containing missing values (geom_point).## Warning: Removed 645 row(s) containing missing values (geom_path).
plotting 2
242 - Pacific Lowland Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 77 64.151
## 2 76 63.028 1 1.1223 1.3532 0.248350
## 3 75 57.102 1 5.9260 7.7834 0.006682 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 340.6367
## 2 2 341.2248
## 3 3 335.3257##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.42715 2.55649 0.167 0.86775
## phi 0.08335 0.05221 1.596 0.11459
## alpha 0.80394 0.26069 3.084 0.00286 **
## A 7.98885 4.05489 1.970 0.05251 .
## k 99.77885 30.12593 3.312 0.00143 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8726 on 75 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 6.624e-06
## (3 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 75 57.102
## 2 74 57.042 1 0.06062 0.0786 0.7799
## 3 74 57.067 0 0.00000
## 4 73 56.521 1 0.54607 0.7053 0.4038
## model AIC
## 1 3 335.3257
## 2 3a 337.2407
## 3 3b 337.2762
## 4 3c 338.5070##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.42715 2.55649 0.167 0.86775
## phi 0.08335 0.05221 1.596 0.11459
## alpha 0.80394 0.26069 3.084 0.00286 **
## A 7.98885 4.05489 1.970 0.05251 .
## k 99.77885 30.12593 3.312 0.00143 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8726 on 75 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 6.624e-06
## (3 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.98873, p-value = 0.7132
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.40173, p-value = 0.6879
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 1 rows containing missing values (geom_point).## Warning: Removed 725 row(s) containing missing values (geom_path).
plotting 2
251 - Prairie Parkland (Temperate)
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1785 1329.7
## 2 1784 1327.5 1 2.1567 2.8983 0.08885 .
## 3 1783 1304.4 1 23.1236 31.6086 2.185e-08 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 5834.037
## 2 2 5833.135
## 3 3 5803.715##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.43104 0.43342 0.995 0.320
## phi 0.01366 0.01083 1.262 0.207
## alpha 0.54040 0.09094 5.942 3.38e-09 ***
## A 4.69771 0.46209 10.166 < 2e-16 ***
## k 98.76330 12.00197 8.229 3.60e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8553 on 1783 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 4.537e-06
## (507 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_TI", sep = "")), data = G_251, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_251, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1783 1304.4
## 2 1782 1298.5 1 5.8502 8.0283 0.004657 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 5803.715
## 2 3a 5797.678
## 3 3b NA
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.41609 0.42989 0.968 0.333227
## phi 0.01429 0.01081 1.322 0.186422
## alpha 0.54611 0.08945 6.105 1.26e-09 ***
## A 5.80828 0.80793 7.189 9.56e-13 ***
## k 166.33129 37.05598 4.489 7.63e-06 ***
## p 0.04523 0.01165 3.883 0.000107 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8536 on 1782 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 9.558e-06
## (507 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.8823, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -8.5432, p-value < 2.2e-16
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 276 rows containing missing values (geom_point).## Warning: Removed 1176 row(s) containing missing values (geom_path).
plotting 2
255 - Prairie Parkland (Subtropical)
Model selection 1
## Error in nls(fg_1_TI, data = G_255, start = c(ge = ge.start, A = A.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_2_TI, data = G_255, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_3_TI, data = G_255, start = c(ge = ge.start, phi = phi.start, :
## number of iterations exceeded maximum of 50
## model AIC
## 1 1 NA
## 2 2 NA
## 3 3 NA## Warning in min(AIC1_255$AIC, na.rm = T): no non-missing arguments to min;
## returning Inf## Error in h(simpleError(msg, call)) :
## error in evaluating the argument 'object' in selecting a method for function 'summary': object 'nls_255.' not foundsummary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
261 - California Coastal Chaparral Forest and Shrub
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
262 - California Dry Steppe
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
263 - California Coastal Steppe - Mixed Forest and Redwood Forest
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
add p model: does not fit
add s model: does not fit
add s+p model: does not fit
note: model fit, but fit was funky due to data being sparse
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
313 - Colorado Plateau Semi-Desert
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 212 92.785
## 2 211 91.353 1 1.4322 3.3079 0.0703648 .
## 3 210 86.638 1 4.7151 11.4287 0.0008622 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 433.8518
## 2 2 432.5074
## 3 3 423.1138##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.04984 1.02836 -1.021 0.308482
## phi -0.09961 0.07240 -1.376 0.170350
## alpha 0.91617 0.23751 3.857 0.000152 ***
## A 3.95268 1.46620 2.696 0.007590 **
## k 182.38588 64.03964 2.848 0.004836 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6423 on 210 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 5.473e-06
## (3 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 210 86.638
## 2 209 85.710 1 0.92793 2.2627 0.1340
## 3 209 86.161 0 0.00000
## 4 208 85.124 1 1.03782 2.5359 0.1128
## model AIC
## 1 3 423.1138
## 2 3a 422.7987
## 3 3b 423.9281
## 4 3c 423.3227##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.97741 1.06842 -0.915 0.3613
## phi -0.10424 0.07273 -1.433 0.1533
## alpha 0.95350 0.23557 4.048 7.29e-05 ***
## A 5.77406 3.58786 1.609 0.1091
## k 408.50291 365.17982 1.119 0.2646
## p 0.03980 0.01937 2.054 0.0412 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6404 on 209 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 5.348e-06
## (3 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.97692, p-value = 0.001345
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = 0.23931, p-value = 0.8109
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 1 rows containing missing values (geom_point).## Warning: Removed 1103 row(s) containing missing values (geom_path).
plotting 2
315 - Southwest Plateau and Plains Dry Steppe and Shrub
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
321 - Chihuahuan Semi-Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
322 - American Semidesert and Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
331 - Great Plains/Palouse Dry Steppe
Model selection 1
## Error in nls(fg_1_TI, data = G_331, start = c(ge = ge.start, A = A.start, :
## number of iterations exceeded maximum of 50
## Error in nls(fg_2_TI, data = G_331, start = c(ge = ge.start, phi = phi.start, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## Error in nls(fg_3_TI, data = G_331, start = c(ge = ge.start, phi = phi.start, :
## step factor 0.000488281 reduced below 'minFactor' of 0.000976562
## model AIC
## 1 1 NA
## 2 2 NA
## 3 3 NA## Warning in min(AIC1_331$AIC, na.rm = T): no non-missing arguments to min;
## returning Inf## Error in h(simpleError(msg, call)) :
## error in evaluating the argument 'object' in selecting a method for function 'summary': object 'nls_331.' not foundsummary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
332 - Great Plains Steppe
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 193 138.02
## 2 192 138.02 1 0.0005 0.0007 0.978628
## 3 191 132.19 1 5.8256 8.4173 0.004153 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 536.3344
## 2 2 538.3336
## 3 3 531.8809##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.493e+00 2.246e+00 0.665 0.50693
## phi 9.014e-03 3.170e-02 0.284 0.77646
## alpha 8.009e-01 2.475e-01 3.236 0.00143 **
## A 4.271e+00 1.699e+00 2.514 0.01277 *
## k 1.435e+02 4.872e+01 2.945 0.00363 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8319 on 191 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 5.079e-06
## (36 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in numericDeriv(form[[3L]], names(ind), env, central = nDcentral) :
## Missing value or an infinity produced when evaluating the model
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 191 132.19
## 2 190 132.10 1 0.08918 0.1283 0.7206
## model AIC
## 1 3 531.8809
## 2 3a 533.7487
## 3 3b 533.8776
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.493e+00 2.246e+00 0.665 0.50693
## phi 9.014e-03 3.170e-02 0.284 0.77646
## alpha 8.009e-01 2.475e-01 3.236 0.00143 **
## A 4.271e+00 1.699e+00 2.514 0.01277 *
## k 1.435e+02 4.872e+01 2.945 0.00363 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8319 on 191 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 5.079e-06
## (36 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.81814, p-value = 2.241e-14
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -2.666, p-value = 0.007676
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 14 rows containing missing values (geom_point).## Warning: Removed 1120 row(s) containing missing values (geom_path).
plotting 2
341 - Intermountain Semi-desert & Desert
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
342 - Intermountain Semi-Desert
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 112 56.909
## 2 111 56.885 1 0.0238 0.0465 0.8297
## 3 110 48.377 1 8.5083 19.3463 2.53e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 240.3323
## 2 2 242.2841
## 3 3 225.6526##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.938491 3.418876 0.275 0.7842
## phi -0.007771 0.048191 -0.161 0.8722
## alpha 1.052768 0.205983 5.111 1.36e-06 ***
## A 5.298591 3.456696 1.533 0.1282
## k 177.482892 72.147530 2.460 0.0155 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6632 on 110 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 1.688e-06
## (9 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in numericDeriv(form[[3L]], names(ind), env, central = nDcentral) :
## Missing value or an infinity produced when evaluating the model
## Error in numericDeriv(form[[3L]], names(ind), env, central = nDcentral) :
## Missing value or an infinity produced when evaluating the model## Warning in anovalist.nls(object, ...): models with response
## 'c("G_MassBal_g5_MgHaYr", "G_MassBal_g5_MgHaYr")' removed because response
## differs from model 1## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 110 48.377
## 2 109 48.250 1 0.12645 0.2857 0.5941
## model AIC
## 1 3 225.6526
## 2 3a 227.3516
## 3 3b 288.5645
## 4 3c 290.5217##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.938491 3.418876 0.275 0.7842
## phi -0.007771 0.048191 -0.161 0.8722
## alpha 1.052768 0.205983 5.111 1.36e-06 ***
## A 5.298591 3.456696 1.533 0.1282
## k 177.482892 72.147530 2.460 0.0155 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6632 on 110 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 1.688e-06
## (9 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.90966, p-value = 9.988e-07
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.0573, p-value = 0.2904
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 5 rows containing missing values (geom_point).## Warning: Removed 1241 row(s) containing missing values (geom_path).
plotting 2
411 - Everglades
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
M211 - Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6746 4413.5
## 2 6745 4396.6 1 16.91 25.939 3.619e-07 ***
## 3 6744 4029.6 1 367.01 614.229 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 20675.75
## 2 2 20651.84
## 3 3 20065.56##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.398e+00 2.730e-01 5.118 3.17e-07 ***
## phi 1.707e-02 4.813e-03 3.547 0.000392 ***
## alpha 8.092e-01 2.984e-02 27.113 < 2e-16 ***
## A 3.587e+00 1.898e-01 18.895 < 2e-16 ***
## k 1.031e+02 5.295e+00 19.476 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.773 on 6744 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 1.587e-06
## (23 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 6744 4029.6
## 2 6743 4015.1 1 14.4359 24.244 8.691e-07 ***
## 3 6743 3994.3 0 0.0000
## 4 6742 3992.1 1 2.1737 3.671 0.05541 .
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 20065.56
## 2 3a 20043.33
## 3 3b 20008.20
## 4 3c 20006.53##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.371218 0.268817 5.101 3.47e-07 ***
## phi 0.017624 0.004784 3.684 0.000232 ***
## alpha 0.820585 0.029405 27.906 < 2e-16 ***
## A 2.611927 0.142928 18.274 < 2e-16 ***
## k 58.852104 2.622506 22.441 < 2e-16 ***
## p 0.030506 0.015128 2.017 0.043785 *
## s 1.594515 0.104476 15.262 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7695 on 6742 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 5.515e-06
## (23 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
predict and plot
## Warning: Removed 15 rows containing missing values (geom_point).## Warning: Removed 1108 row(s) containing missing values (geom_path).
plotting 2
M221 - Eastern Broadleaf Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8257 12696
## 2 8256 12696 1 0.00 0.0001 0.9936
## 3 8255 12323 1 372.38 249.4426 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 36024.31
## 2 2 36026.31
## 3 3 35782.41##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.785e-01 1.860e-01 1.497 0.134
## phi 3.295e-03 6.313e-03 0.522 0.602
## alpha 8.864e-01 5.290e-02 16.758 <2e-16 ***
## A 5.687e+00 2.856e-01 19.911 <2e-16 ***
## k 1.059e+02 7.985e+00 13.265 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.222 on 8255 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 2.076e-06
## (55 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M221, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 8255 12323
## 2 8254 12319 1 4.6764 3.1334 0.07674 .
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 35782.41
## 2 3a 35781.28
## 3 3b 35770.98
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.287e-01 1.829e-01 1.250 0.21128
## phi 4.256e-03 6.308e-03 0.675 0.49987
## alpha 8.880e-01 5.268e-02 16.858 < 2e-16 ***
## A 1.054e+01 3.304e+00 3.189 0.00143 **
## k 4.748e+02 3.854e+02 1.232 0.21800
## s 6.739e-01 8.137e-02 8.282 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.221 on 8254 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 3.827e-06
## (55 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
predict and plot
## Warning: Removed 22 rows containing missing values (geom_point).## Warning: Removed 982 row(s) containing missing values (geom_path).
plotting 2
M223 - Ozark Broadleaf Forest Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 887 1168.5
## 2 886 1164.3 1 4.111 3.1279 0.07731 .
## 3 885 1115.3 1 48.992 38.8737 6.992e-10 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 3366.802
## 2 2 3365.666
## 3 3 3329.407##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 5.43806 2.92939 1.856 0.063732 .
## phi -0.05992 0.02366 -2.532 0.011501 *
## alpha 1.04581 0.15261 6.853 1.36e-11 ***
## A 2.48517 0.79903 3.110 0.001929 **
## k 124.72196 35.78148 3.486 0.000515 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.123 on 885 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 4.526e-06
## (6 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M223, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 885 1115.3
## 2 884 1114.7 1 0.63251 0.5016 0.479
## model AIC
## 1 3 3329.407
## 2 3a 3330.902
## 3 3b 3330.305
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 5.43806 2.92939 1.856 0.063732 .
## phi -0.05992 0.02366 -2.532 0.011501 *
## alpha 1.04581 0.15261 6.853 1.36e-11 ***
## A 2.48517 0.79903 3.110 0.001929 **
## k 124.72196 35.78148 3.486 0.000515 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.123 on 885 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 4.526e-06
## (6 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.95534, p-value = 8.236e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.6093, p-value = 0.1076
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 4 rows containing missing values (geom_point).## Warning: Removed 1175 row(s) containing missing values (geom_path).
plotting 2
M231 - Ouachita Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 989 1289.9
## 2 988 1271.2 1 18.635 14.483 0.0001501 ***
## 3 987 1198.1 1 73.104 60.222 2.11e-14 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 3745.090
## 2 2 3732.654
## 3 3 3675.901##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.57887 1.72043 1.499 0.134202
## phi 0.07341 0.02789 2.632 0.008620 **
## alpha 0.91659 0.10866 8.436 < 2e-16 ***
## A 3.49591 0.92350 3.786 0.000163 ***
## k 116.20283 25.01927 4.645 3.87e-06 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.102 on 987 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 3.102e-06
## (14 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_TI", sep = "")), data = G_M231, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M231, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 987 1198.1
## 2 986 1195.9 1 2.2462 1.852 0.1739
## model AIC
## 1 3 3675.901
## 2 3a 3676.040
## 3 3b NA
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 2.57887 1.72043 1.499 0.134202
## phi 0.07341 0.02789 2.632 0.008620 **
## alpha 0.91659 0.10866 8.436 < 2e-16 ***
## A 3.49591 0.92350 3.786 0.000163 ***
## k 116.20283 25.01927 4.645 3.87e-06 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.102 on 987 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 3.102e-06
## (14 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.92797, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.009, p-value = 6.097e-05
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 4 rows containing missing values (geom_point).## Warning: Removed 1218 row(s) containing missing values (geom_path).
plotting 2
M242 - Cascade Mixed Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 3147 6340.4
## 2 3146 6316.1 1 24.27 12.089 0.0005141 ***
## 3 3145 5958.1 1 357.99 188.965 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 14546.02
## 2 2 14535.94
## 3 3 14354.14##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.60996 0.23841 -6.753 1.72e-11 ***
## phi -0.04531 0.01675 -2.705 0.00686 **
## alpha 1.00760 0.06593 15.283 < 2e-16 ***
## A 10.50226 0.85758 12.246 < 2e-16 ***
## k 137.61759 9.89727 13.905 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.376 on 3145 degrees of freedom
##
## Number of iterations to convergence: 4
## Achieved convergence tolerance: 8.48e-06
## (74 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 3145 5958.1
## 2 3144 5954.3 1 3.7936 2.0031 0.157076
## 3 3144 5958.1 0 0.0000
## 4 3143 5944.5 1 13.6556 7.2201 0.007247 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 14354.14
## 2 3a 14354.13
## 3 3b 14356.14
## 4 3c 14350.91##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.59542 0.24027 -6.640 3.68e-11 ***
## phi -0.04897 0.01686 -2.905 0.00370 **
## alpha 1.01257 0.06566 15.420 < 2e-16 ***
## A 9.21407 0.84256 10.936 < 2e-16 ***
## k 121.11173 11.59186 10.448 < 2e-16 ***
## p 0.07108 0.02178 3.263 0.00111 **
## s 1.36655 0.15013 9.102 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.375 on 3143 degrees of freedom
##
## Number of iterations to convergence: 6
## Achieved convergence tolerance: 3.462e-06
## (74 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.90152, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.1427, p-value = 3.432e-05
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 46 rows containing missing values (geom_point).## Warning: Removed 126 row(s) containing missing values (geom_path).
plotting 2
M261 - Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1682 2218.6
## 2 1681 2162.2 1 56.358 43.815 4.841e-11 ***
## 3 1680 2038.6 1 123.664 101.913 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 6757.119
## 2 2 6715.763
## 3 3 6618.527##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.99702 0.41076 -2.427 0.0153 *
## phi 0.12234 0.01595 7.671 2.88e-14 ***
## alpha 0.91665 0.08262 11.094 < 2e-16 ***
## A 12.24045 1.36971 8.936 < 2e-16 ***
## k 222.56853 21.81811 10.201 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.102 on 1680 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 7.477e-06
## (292 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1680 2038.6
## 2 1679 2036.4 1 2.1419 1.7660 0.1841
## 3 1679 2038.3 0 0.0000
## 4 1678 2035.4 1 2.8694 2.3656 0.1242
## model AIC
## 1 3 6618.527
## 2 3a 6618.756
## 3 3b 6620.293
## 4 3c 6619.919##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -0.99702 0.41076 -2.427 0.0153 *
## phi 0.12234 0.01595 7.671 2.88e-14 ***
## alpha 0.91665 0.08262 11.094 < 2e-16 ***
## A 12.24045 1.36971 8.936 < 2e-16 ***
## k 222.56853 21.81811 10.201 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 1.102 on 1680 degrees of freedom
##
## Number of iterations to convergence: 5
## Achieved convergence tolerance: 7.477e-06
## (292 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.90484, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -1.2897, p-value = 0.1972
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 154 rows containing missing values (geom_point).
plotting 2
M262 - Califormia Coastal Range = Coniferous Forest - Open woodland Shrub Meadow
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
M313 - Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 363 161.29
## 2 362 154.66 1 6.6256 15.508 9.857e-05 ***
## 3 361 136.40 1 18.2578 48.320 1.702e-11 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 797.8815
## 2 2 784.5289
## 3 3 740.5521##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -2.21807 0.30914 -7.175 4.13e-12 ***
## phi 0.06447 0.02175 2.964 0.003239 **
## alpha 0.86627 0.10803 8.019 1.50e-14 ***
## A 14.24293 3.14943 4.522 8.31e-06 ***
## k 249.50043 66.37567 3.759 0.000199 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6147 on 361 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 2.692e-06
## (1 observation deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 361 136.40
## 2 360 136.02 1 0.38581 1.0211 0.3129
## 3 360 135.97 0 0.00000
## 4 359 135.97 1 0.00077 0.0020 0.9640
## model AIC
## 1 3 740.5521
## 2 3a 741.5154
## 3 3b 741.3927
## 4 3c 743.3906##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -2.21807 0.30914 -7.175 4.13e-12 ***
## phi 0.06447 0.02175 2.964 0.003239 **
## alpha 0.86627 0.10803 8.019 1.50e-14 ***
## A 14.24293 3.14943 4.522 8.31e-06 ***
## k 249.50043 66.37567 3.759 0.000199 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.6147 on 361 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 2.692e-06
## (1 observation deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.97187, p-value = 1.564e-06
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -0.64985, p-value = 0.5158
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 1183 row(s) containing missing values (geom_path).
plotting 2
M331 - Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1732 1220.2
## 2 1731 1202.9 1 17.31 24.909 6.614e-07 ***
## 3 1730 1067.9 1 134.97 218.651 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 4008.309
## 2 2 3985.520
## 3 3 3781.028##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.41907 1.35136 1.050 0.294
## phi 0.10188 0.01355 7.519 8.83e-14 ***
## alpha 0.87931 0.04822 18.237 < 2e-16 ***
## A 2.17931 0.50497 4.316 1.68e-05 ***
## k 98.38321 14.42372 6.821 1.25e-11 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7857 on 1730 degrees of freedom
##
## Number of iterations to convergence: 8
## Achieved convergence tolerance: 7.642e-06
## (21 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_TI", sep = "")), data = G_M331, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M331, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1730 1067.9
## 2 1729 1061.8 1 6.1655 10.04 0.001558 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 3781.028
## 2 3a 3772.982
## 3 3b NA
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 1.58563 1.42035 1.116 0.264420
## phi 0.10254 0.01353 7.576 5.76e-14 ***
## alpha 0.87942 0.04786 18.374 < 2e-16 ***
## A 2.91230 0.79372 3.669 0.000251 ***
## k 212.37226 63.61103 3.339 0.000860 ***
## p 0.05697 0.01227 4.644 3.68e-06 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7836 on 1729 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 3.548e-06
## (21 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.87532, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.6361, p-value = 3.55e-06
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 10 rows containing missing values (geom_point).## Warning: Removed 1091 row(s) containing missing values (geom_path).
plotting 2
M332 - Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 2513 1908.3
## 2 2512 1901.0 1 7.358 9.7229 0.001841 **
## 3 2511 1600.9 1 300.117 470.7424 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 7070.262
## 2 2 7062.542
## 3 3 6632.226##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.37717 0.27362 -5.033 5.17e-07 ***
## phi 0.03924 0.01414 2.775 0.00557 **
## alpha 1.01750 0.03982 25.554 < 2e-16 ***
## A 8.47074 0.91518 9.256 < 2e-16 ***
## k 173.17394 17.04337 10.161 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7985 on 2511 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 5.27e-06
## (96 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "b", "_TI", sep = "")), data = G_M332, :
## number of iterations exceeded maximum of 50
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M332, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 2511 1600.9
## 2 2510 1592.1 1 8.7362 13.773 0.0002108 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 6632.226
## 2 3a 6620.458
## 3 3b NA
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge -1.38360 0.27184 -5.090 3.85e-07 ***
## phi 0.03923 0.01408 2.786 0.00538 **
## alpha 1.01443 0.03978 25.499 < 2e-16 ***
## A 10.12922 1.26771 7.990 2.03e-15 ***
## k 246.09225 34.42542 7.149 1.14e-12 ***
## p 0.01807 0.00410 4.407 1.09e-05 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.7964 on 2510 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 3.621e-06
## (96 observations deleted due to missingness)summary
- add p model: fits
- add s model: does not fit
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.90034, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -5.0757, p-value = 3.861e-07
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 53 rows containing missing values (geom_point).## Warning: Removed 1001 row(s) containing missing values (geom_path).
plotting 2
M333 - Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1691 1694.2
## 2 1690 1691.9 1 2.301 2.2987 0.1297
## 3 1689 1407.5 1 284.422 341.3086 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 5853.124
## 2 2 5852.822
## 3 3 5543.039##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.64658 0.91472 0.707 0.480
## phi 0.01125 0.01758 0.640 0.522
## alpha 1.04361 0.04870 21.429 < 2e-16 ***
## A 6.02771 1.11412 5.410 7.19e-08 ***
## k 138.31144 14.06122 9.836 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9129 on 1689 degrees of freedom
##
## Number of iterations to convergence: 9
## Achieved convergence tolerance: 2.421e-06
## (59 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Error in nls(get(paste("fg_", Mod.Sel1, "c", "_TI", sep = "")), data = G_M333, :
## number of iterations exceeded maximum of 50
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 1689 1407.5
## 2 1688 1402.6 1 4.9064 5.9048 0.0152 *
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 3 5543.039
## 2 3a 5539.124
## 3 3b 5515.516
## 4 3c NA##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 3.154e-01 7.995e-01 0.394 0.693
## phi 1.275e-02 1.740e-02 0.733 0.464
## alpha 1.034e+00 4.801e-02 21.538 <2e-16 ***
## A 2.931e+01 2.764e+01 1.061 0.289
## k 3.616e+03 6.681e+03 0.541 0.588
## s 6.529e-01 5.619e-02 11.620 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.9052 on 1688 degrees of freedom
##
## Number of iterations to convergence: 10
## Achieved convergence tolerance: 2.171e-06
## (59 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: does not fit
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.91475, p-value < 2.2e-16
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -4.4552, p-value = 8.383e-06
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 25 rows containing missing values (geom_point).## Warning: Removed 925 row(s) containing missing values (geom_path).
plotting 2
M334 - Black Hills Coniferous Forest
Model selection 1
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 355 278.17
## 2 354 278.09 1 0.0814 0.1036 0.7477
## 3 353 253.34 1 24.7464 34.4810 9.94e-09 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## model AIC
## 1 1 925.8321
## 2 2 927.7273
## 3 3 896.3622##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.94186 2.52533 0.373 0.709400
## phi -0.02184 0.03552 -0.615 0.539023
## alpha 0.85618 0.12668 6.759 5.77e-11 ***
## A 1.93987 0.83170 2.332 0.020241 *
## k 44.09669 12.98016 3.397 0.000758 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8472 on 353 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 7.239e-06
## (101 observations deleted due to missingness)summary
- simple model: fits
- phi model: fits
- phi-alpha model: fits
Model selection 2
## Analysis of Variance Table
##
## Model 1: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
## Model 2: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)))
## Model 3: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s))
## Model 4: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) * ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) * (p * A + ((1 - p) * A * B_plt_t1_MgHa^s/(k^s + B_plt_t1_MgHa^s)))
## Res.Df Res.Sum Sq Df Sum Sq F value Pr(>F)
## 1 353 253.34
## 2 352 253.33 1 0.01554 0.0216 0.8833
## 3 352 253.12 0 0.00000
## 4 351 252.76 1 0.36271 0.5037 0.4784
## model AIC
## 1 3 896.3622
## 2 3a 898.3402
## 3 3b 898.0543
## 4 3c 899.5409##
## Formula: G_obs_TreeInc_NoIngrow_MgHaYr ~ (1 + (MEASTIME_avg - 1990) *
## ge/100) * (1 + phi * DeltaPDSI) * (1 - alpha * B_L_prop) *
## A * B_plt_t1_MgHa/(k + B_plt_t1_MgHa)
##
## Parameters:
## Estimate Std. Error t value Pr(>|t|)
## ge 0.94186 2.52533 0.373 0.709400
## phi -0.02184 0.03552 -0.615 0.539023
## alpha 0.85618 0.12668 6.759 5.77e-11 ***
## A 1.93987 0.83170 2.332 0.020241 *
## k 44.09669 12.98016 3.397 0.000758 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## Residual standard error: 0.8472 on 353 degrees of freedom
##
## Number of iterations to convergence: 7
## Achieved convergence tolerance: 7.239e-06
## (101 observations deleted due to missingness)summary
- add p model: fits
- add s model: fits
- add s+p model: fits
plot residuals
##
## ------
## Shapiro-Wilk normality test
##
## data: stdres
## W = 0.9216, p-value = 9.819e-13
##
##
## ------##
## Runs Test
##
## data: as.factor(run)
## Standard Normal = -2.2145, p-value = 0.02679
## alternative hypothesis: two.sidedpredict and plot
## Warning: Removed 46 rows containing missing values (geom_point).## Warning: Removed 1264 row(s) containing missing values (geom_path).
plotting 2
M341 - Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow
Model selection 1
summary
- simple model: does not fit
- phi model: does not fit
- phi-alpha model: does not fit
Model selection 2
summary
- add p model: does not fit
- add s model: does not fit
- add s+p model: does not fit
plot residuals
## [1] "cannot plot residuals"predict and plot
## [1] "cannot plot data with prediction"plotting 2
Fitted parameters
Best / selected models by ecoprovince
| Code | Ecoregion | Sel.Mod |
|---|---|---|
| 211 | Northeastern Mixed Forest | 3c |
| 212 | Laurentian Mixed Forest | 3c |
| 221 | Eastern Broadleaf Forest | 3b |
| 222 | Midwest Broadleaf Forest | 3a |
| 223 | Central Interior Broadleaf Forest | 3a |
| 231 | Southeastern Mixed Forest | 3b |
| 232 | Outer Coastal Plain Mixed Forest | 3c |
| 234 | Lower Mississippi Riverine Forest | 3 |
| 242 | Pacific Lowland Mixed Forest | 3 |
| 251 | Prairie Parkland (Temperate) | 3a |
| 255 | Prairie Parkland (Subtropical) | NA |
| 261 | California Coastal Chaparral Forest and Shrub | NA |
| 262 | California Dry Steppe | NA |
| 263 | California Coastal Steppe - Mixed Forest and Redwood Forest | NA |
| 313 | Colorado Plateau Semi-Desert | 3a |
| 315 | Southwest Plateau and Plains Dry Steppe and Shrub | NA |
| 321 | Chihuahuan Semi-Desert | NA |
| 322 | American Semidesert and Desert | NA |
| 331 | Great Plains/Palouse Dry Steppe | NA |
| 332 | Great Plains Steppe | 3 |
| 341 | Intermountain Semi-Desert and Desert | NA |
| 342 | Intermountain Semi-Desert | 3 |
| 411 | Everglades | NA |
| M211 | Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow | 3c |
| M221 | Central Appalachian Broadleaf Forest - Coniferous Forest - Meadow | 3b |
| M223 | Ozark Broadleaf Forest Meadow | 3 |
| M231 | Ouachita Mixed Forest | 3 |
| M242 | Cascade Mixed Forest | 3c |
| M261 | Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow | 3 |
| M262 | California Coastal Range Coniferous Forest - Open Woodland - Shrub - Meadow | NA |
| M313 | Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow | 3 |
| M331 | Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow | 3a |
| M332 | Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | 3a |
| M333 | Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | 3b |
| M334 | Black Hills Coniferous Forest | 3 |
| M341 | Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow | NA |
table by ecoprovince
| Code | Ecoregion | region | n.obs | n.plots | ge | ge.variance | ge.2.5 | ge.97.5 | phi | phi.variance | phi.2.5 | phi.97.5 | alpha | alpha.variance | alpha.2.5 | alpha.97.5 | A | A.2.5 | A.97.5 | k | k.2.5 | k.97.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 211 | Northeastern Mixed Forest | east | 6877 | 2876 | 0.3813827 | NA | 0.0297623 | 0.7330031 | 0.0200983 | NA | 0.0105442 | 0.0296524 | 0.7982961 | NA | 0.7363717 | 0.8602205 | 3.890913 | 3.4812550 | 4.300570 | 78.76899 | 68.76499 | 88.77299 |
| 212 | Laurentian Mixed Forest | east | 22715 | 9499 | 0.6226514 | 0.0165777 | 0.3702810 | 0.8750219 | 0.0368591 | 0.0000076 | 0.0314504 | 0.0422679 | 1.0686454 | 0.0003590 | 1.0315092 | 1.1057816 | 3.304583 | 3.0921468 | 3.517020 | 74.72142 | 69.31795 | 80.12489 |
| 221 | Eastern Broadleaf Forest | east | 7333 | 3571 | -1.0636225 | 0.0118719 | -1.2772127 | -0.8500322 | 0.0194395 | 0.0000254 | 0.0095594 | 0.0293196 | 0.8201387 | 0.0013117 | 0.7491423 | 0.8911351 | 9.903863 | 6.9315957 | 12.876130 | 200.80804 | 48.79761 | 352.81847 |
| 222 | Midwest Broadleaf Forest | east | 5845 | 2589 | 0.0019241 | 0.0457906 | -0.4175882 | 0.4214365 | 0.0154152 | 0.0000599 | 0.0002421 | 0.0305883 | 0.9707974 | 0.0014709 | 0.8956105 | 1.0459843 | 7.304322 | 6.4579491 | 8.150694 | 159.07772 | 132.88939 | 185.26604 |
| 223 | Central Interior Broadleaf Forest | east | 10010 | 3864 | -0.9514096 | 0.0111539 | -1.1584345 | -0.7443848 | -0.0049552 | 0.0000341 | -0.0164000 | 0.0064896 | 0.8498902 | 0.0011916 | 0.7822233 | 0.9175572 | 22.939833 | 15.4871092 | 30.392556 | 732.50729 | 432.38187 | 1032.63270 |
| 231 | Southeastern Mixed Forest | east | 13517 | 6193 | 1.4039174 | 0.0378089 | 1.0227772 | 1.7850576 | 0.0168481 | 0.0000218 | 0.0076874 | 0.0260088 | 0.9392190 | 0.0004362 | 0.8982788 | 0.9801591 | 4.570986 | 4.2032672 | 4.938706 | 46.75272 | 41.49112 | 52.01431 |
| 232 | Outer Coastal Plain Mixed Forest | east | 13629 | 6626 | 1.0391611 | 0.0387531 | 0.6532911 | 1.4250310 | 0.0063819 | 0.0000243 | -0.0032796 | 0.0160433 | 0.9647431 | 0.0004161 | 0.9247591 | 1.0047271 | 4.483501 | 4.1078373 | 4.859164 | 49.94802 | 44.99578 | 54.90026 |
| 234 | Lower Mississippi Riverine Forest | east | 1388 | 778 | 3.2061166 | 4.4353415 | -0.9253992 | 7.3376325 | -0.0231143 | 0.0006066 | -0.0714309 | 0.0252022 | 0.9879888 | 0.0082396 | 0.8099150 | 1.1660625 | 3.648168 | 1.7389690 | 5.557367 | 57.32926 | 36.76345 | 77.89506 |
| 242 | Pacific Lowland Mixed Forest | pacific | 83 | 83 | 0.4271518 | 6.5356559 | -4.6656432 | 5.5199468 | 0.0833513 | 0.0027259 | -0.0206557 | 0.1873584 | 0.8039405 | 0.0679568 | 0.2846288 | 1.3232522 | 7.988850 | -0.0889087 | 16.066609 | 99.77885 | 39.76492 | 159.79277 |
| 251 | Prairie Parkland (Temperate) | east | 2295 | 906 | 0.4160933 | 0.1848091 | -0.4270567 | 1.2592434 | 0.0142934 | 0.0001169 | -0.0069161 | 0.0355029 | 0.5461081 | 0.0080014 | 0.3706695 | 0.7215467 | 5.808278 | 4.2236860 | 7.392869 | 166.33129 | 93.65355 | 239.00904 |
| 255 | Prairie Parkland (Subtropical) | east | 717 | 319 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 261 | California Coastal Chaparral Forest and Shrub | pacific | 25 | 25 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 262 | California Dry Steppe | pacific | 0 | 0 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 263 | California Coastal Steppe - Mixed Forest and Redwood Forest | pacific | 163 | 161 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 313 | Colorado Plateau Semi-Desert | interior west | 218 | 218 | -0.9774064 | 1.1415138 | -3.0836607 | 1.1288480 | -0.1042428 | 0.0052903 | -0.2476296 | 0.0391441 | 0.9535040 | 0.0554955 | 0.4890964 | 1.4179116 | 5.774063 | -1.2989738 | 12.847099 | 408.50291 | -311.40509 | 1128.41090 |
| 315 | Southwest Plateau and Plains Dry Steppe and Shrub | interior west | 4 | 4 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 321 | Chihuahuan Semi-Desert | interior west | 9 | 9 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 322 | American Semidesert and Desert | interior west | 3 | 3 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 331 | Great Plains/Palouse Dry Steppe | interior west | 331 | 255 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 332 | Great Plains Steppe | interior west | 232 | 128 | 1.4933011 | 5.0443138 | -2.9367597 | 5.9233620 | 0.0090137 | 0.0010049 | -0.0535143 | 0.0715416 | 0.8009468 | 0.0612462 | 0.3128025 | 1.2890910 | 4.270666 | 0.9195742 | 7.621757 | 143.47518 | 47.37152 | 239.57884 |
| 341 | Intermountain Semi-Desert and Desert | interior west | 66 | 64 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| 342 | Intermountain Semi-Desert | interior west | 124 | 123 | 0.9384911 | 11.6887108 | -5.8369180 | 7.7139002 | -0.0077709 | 0.0023224 | -0.1032745 | 0.0877326 | 1.0527678 | 0.0424292 | 0.6445570 | 1.4609785 | 5.298591 | -1.5517690 | 12.148951 | 177.48289 | 34.50342 | 320.46236 |
| 411 | Everglades | east | 96 | 63 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| M211 | Adirondack-New England Mixed forest - Coniferous Forest - Alpine Meadow | east | 6772 | 3006 | 1.3712176 | 0.0722628 | 0.8442505 | 1.8981848 | 0.0176236 | 0.0000229 | 0.0082447 | 0.0270025 | 0.8205855 | 0.0008647 | 0.7629415 | 0.8782294 | 2.611927 | 2.3317440 | 2.892110 | 58.85210 | 53.71116 | 63.99305 |
| M221 | Central Appalachian Broadleaf Forest - Coniferous Forest - Meadow | east | 8315 | 3810 | 0.2286808 | 0.0334608 | -0.1298940 | 0.5872557 | 0.0042564 | 0.0000398 | -0.0081097 | 0.0166225 | 0.8879967 | 0.0027747 | 0.7847393 | 0.9912541 | 10.536414 | 4.0592871 | 17.013540 | 474.80027 | -280.69077 | 1230.29130 |
| M223 | Ozark Broadleaf Forest Meadow | east | 896 | 349 | 5.4380574 | 8.5813470 | -0.3113115 | 11.1874263 | -0.0599231 | 0.0005599 | -0.1063646 | -0.0134816 | 1.0458094 | 0.0232894 | 0.7462925 | 1.3453263 | 2.485168 | 0.9169512 | 4.053385 | 124.72196 | 54.49551 | 194.94842 |
| M231 | Ouachita Mixed Forest | east | 1006 | 495 | 2.5788680 | 2.9598848 | -0.7972560 | 5.9549920 | 0.0734092 | 0.0007779 | 0.0186773 | 0.1281411 | 0.9165879 | 0.0118060 | 0.7033660 | 1.1298098 | 3.495909 | 1.6836651 | 5.308152 | 116.20283 | 67.10575 | 165.29992 |
| M242 | Cascade Mixed Forest | pacific | 3224 | 3207 | -1.5954198 | 0.0577315 | -2.0665291 | -1.1243105 | -0.0489659 | 0.0002842 | -0.0820186 | -0.0159132 | 1.0125662 | 0.0043118 | 0.8838166 | 1.1413157 | 9.214068 | 7.5620528 | 10.866082 | 121.11173 | 98.38335 | 143.84011 |
| M261 | Sierran Steppe - Mixed Forest - Coniferous Forest - Alpine Meadow | pacific | 1977 | 1807 | -0.9970190 | 0.1687257 | -1.8026789 | -0.1913590 | 0.1223354 | 0.0002544 | 0.0910544 | 0.1536164 | 0.9166482 | 0.0068265 | 0.7545941 | 1.0787024 | 12.240446 | 9.5539198 | 14.926973 | 222.56853 | 179.77498 | 265.36208 |
| M262 | California Coastal Range Coniferous Forest - Open Woodland - Shrub - Meadow | interior west | 30 | 26 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
| M313 | Arizona-New Mexico Mountains Semi-Desert - Open Woodland - Coniferous Forest - Alpine Meadow | interior west | 367 | 367 | -2.2180673 | 0.0955661 | -2.8260042 | -1.6101305 | 0.0644689 | 0.0004731 | 0.0216938 | 0.1072441 | 0.8662694 | 0.0116697 | 0.6538289 | 1.0787098 | 14.242926 | 8.0493969 | 20.436455 | 249.50043 | 118.96889 | 380.03197 |
| M331 | Southern Rocky Mountain Steppe - Open Woodland - Coniferous Forest - Alpine Meadow | interior west | 1756 | 1756 | 1.5856303 | 2.0173850 | -1.2001483 | 4.3714090 | 0.1025412 | 0.0001832 | 0.0759956 | 0.1290868 | 0.8794185 | 0.0022908 | 0.7855437 | 0.9732933 | 2.912305 | 1.3555472 | 4.469063 | 212.37226 | 87.60958 | 337.13493 |
| M332 | Middle Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | interior west | 2612 | 2602 | -1.3836032 | 0.0738987 | -1.9166631 | -0.8505433 | 0.0392317 | 0.0001983 | 0.0116182 | 0.0668452 | 1.0144294 | 0.0015827 | 0.9364181 | 1.0924406 | 10.129215 | 7.6433590 | 12.615071 | 246.09225 | 178.58712 | 313.59739 |
| M333 | Northern Rocky Mountain Steppe - Coniferous Forest - Alpine Meadow | interior west | 1753 | 1742 | 0.3153856 | 0.6391894 | -1.2527167 | 1.8834879 | 0.0127471 | 0.0003027 | -0.0213782 | 0.0468724 | 1.0340808 | 0.0023052 | 0.9399113 | 1.1282503 | 29.313158 | -24.8961637 | 83.522479 | 3615.62183 | -9487.31905 | 16718.56271 |
| M334 | Black Hills Coniferous Forest | interior west | 459 | 181 | 0.9418550 | 6.3772896 | -4.0247284 | 5.9084385 | -0.0218428 | 0.0012619 | -0.0917063 | 0.0480207 | 0.8561804 | 0.0160479 | 0.6070374 | 1.1053234 | 1.939865 | 0.3041559 | 3.575575 | 44.09669 | 18.56853 | 69.62486 |
| M341 | Nevada-Utah Mountains Semi-Desert - Coniferous Forest - Alpine Meadow | interior west | 220 | 220 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA |
plot ge
map
## OGR data source with driver: ESRI Shapefile
## Source: "C:\Users\hogan.jaaron\Dropbox\FIA_R\Mapping\S_USA.EcoMapProvinces\S_USA.EcoMapProvinces.shp", layer: "S_USA.EcoMapProvinces"
## with 37 features
## It has 17 fields
## Integer64 fields read as strings: PROVINCE_ PROVINCE_I## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
## Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : font
## family not found in Windows font database
plot phi (effect of DeltaPDSI)
plot alpha (biomass growth compensation effect)
plot A (asymptote of forest biomass growth in Mg/ha/yr)
## Warning: Removed 14 rows containing missing values (geom_point).
plot k (stand biomass at half biomss G in Mg/ha)
## Warning: Removed 13 rows containing missing values (geom_point).
Caclulations - weighted averages
ge (stand biomass growth enhancement factor in % 2000-2021)
## region weighted.ge weighted.ge.std_Error 95 % CI, upper 95 % CI, lower
## 1 entire US 0.31871779 0.13688112 0.58700478 0.0504308
## 2 pacific -0.11882039 0.01971818 -0.08017276 -0.1574680
## 3 east 0.45163260 0.12330068 0.69330193 0.2099633
## 4 interior west -0.01409442 0.05607653 0.09581557 -0.1240044phi (effect of DeltaPDSI)
## region weighted.phi weighted.phi.std_Error 95 % CI, upper
## 1 entire US 0.018934720 5.460508e-08 0.018934827
## 2 pacific 0.001224769 1.087294e-03 0.003355866
## 3 east 0.012504457 2.788122e-03 0.017969176
## 4 interior west 0.005205494 1.024075e-03 0.007212682
## 95 % CI, lower
## 1 0.0189346130
## 2 -0.0009063281
## 3 0.0070397368
## 4 0.0031983065alpha (biomass growth compensation effect)
## region weighted.alpha weighted.alpha.std_Error 95 % CI, upper
## 1 entire US 0.91812588 2.996704e-07 0.91812647
## 2 pacific 0.08580768 4.631293e-03 0.09488502
## 3 east 0.71323424 1.640097e-02 0.74538014
## 4 interior west 0.11908395 3.297537e-03 0.12554712
## 95 % CI, lower
## 1 0.91812529
## 2 0.07673035
## 3 0.68108835
## 4 0.11262078A (asymptote of forest biomass growth in Mg/ha/yr)
## region weighted.A
## 1 entire US 7.684198
## 2 pacific 9.905561
## 3 east 6.724078
## 4 interior west 11.765281K (stand biomass at half biomss G in Mg/ha)
## region weighted.k
## 1 entire US 278.5972
## 2 pacific 151.2149
## 3 east 173.5138
## 4 interior west 979.5360